Diff of the two buildlogs: -- --- b1/build.log 2025-09-27 21:26:38.999319108 +0000 +++ b2/build.log 2025-09-27 23:51:37.525529947 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Oct 30 13:47:11 -12 2026 -I: pbuilder-time-stamp: 1793411231 +I: Current time: Sun Sep 28 11:26:43 +14 2025 +I: pbuilder-time-stamp: 1759008403 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration @@ -35,53 +35,85 @@ dpkg-source: info: applying fix_python3_tests I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3884016/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/770950/tmp/hooks/D01_modify_environment starting +debug: Running on ionos1-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Sep 27 21:27 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/770950/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/770950/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' - DISTRIBUTION='forky' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="3" [2]="3" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.3.3(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=40 ' + DIRSTACK=() + DISTRIBUTION=forky + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='8df3f875b5d54a2aba999ea701b3e4c7' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='3884016' - PS1='# ' - PS2='> ' + INVOCATION_ID=b3b380e1550849cb824417a51701bd27 + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=770950 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.bDyn7aS9/pbuilderrc_cWwR --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.bDyn7aS9/b1 --logfile b1/build.log seqan2_2.4.0+dfsg-16.dsc' - SUDO_GID='111' - SUDO_HOME='/var/lib/jenkins' - SUDO_UID='106' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.bDyn7aS9/pbuilderrc_lz8h --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.bDyn7aS9/b2 --logfile b2/build.log seqan2_2.4.0+dfsg-16.dsc' + SUDO_GID=110 + SUDO_HOME=/var/lib/jenkins + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos15-amd64 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/3884016/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/770950/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -222,7 +254,7 @@ Get: 87 http://deb.debian.org/debian forky/main amd64 libboost1.83-dev amd64 1.83.0-5 [10.6 MB] Get: 88 http://deb.debian.org/debian forky/main amd64 libboost-dev amd64 1.83.0.2+b2 [3836 B] Get: 89 http://deb.debian.org/debian forky/main amd64 libbz2-dev amd64 1.0.8-6 [31.4 kB] -Fetched 58.3 MB in 20s (2982 kB/s) +Fetched 58.3 MB in 21s (2808 kB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19917 files and directories currently installed.) @@ -527,8 +559,8 @@ Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' -Local time is now: Sat Oct 31 01:51:12 UTC 2026. -Universal Time is now: Sat Oct 31 01:51:12 UTC 2026. +Local time is now: Sat Sep 27 21:30:17 UTC 2025. +Universal Time is now: Sat Sep 27 21:30:17 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20240727.1) ... @@ -605,7 +637,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/seqan2-2.4.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../seqan2_2.4.0+dfsg-16_source.changes +I: user script /srv/workspace/pbuilder/770950/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for forky +I: user script /srv/workspace/pbuilder/770950/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/seqan2-2.4.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../seqan2_2.4.0+dfsg-16_source.changes dpkg-buildpackage: info: source package seqan2 dpkg-buildpackage: info: source version 2.4.0+dfsg-16 dpkg-buildpackage: info: source distribution unstable @@ -4669,8 +4705,8 @@ apps/yara/CMakeLists.txt:188 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. --- Configuring done (14.6s) --- Generating done (2.2s) +-- Configuring done (12.7s) +-- Generating done (1.5s) CMake Warning: Manually-specified variables were not used by the project: @@ -4741,16 +4777,16 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/seqan_library.dir/build.make CMakeFiles/seqan_library.dir/build +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f apps/mason2/CMakeFiles/mason_sim.dir/build.make apps/mason2/CMakeFiles/mason_sim.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'CMakeFiles/seqan_library.dir/build'. make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 0%] Built target seqan_library -[ 0%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/external_split_merge.cpp.o make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/depend +[ 0%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/external_split_merge.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/external_split_merge.cpp.o -MF CMakeFiles/mason_sim.dir/external_split_merge.cpp.o.d -o CMakeFiles/mason_sim.dir/external_split_merge.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/external_split_merge.cpp make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/DependInfo.cmake "--color=" @@ -5005,6 +5041,14 @@ 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/external_split_merge.h:53: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 221 | struct QualityExtractor : public std::unary_function @@ -5051,21 +5095,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -5112,6 +5141,13 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': @@ -7138,6 +7174,16 @@ | ^~~~~~~~ [ 0%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_454.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/simulate_454.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_454.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_454.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_454.cpp +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 0%] Built target pair_align_global_1111 +make -f apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 0%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o -MF CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o.d -o CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, @@ -7583,6 +7629,94 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:40: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public std::unary_function { @@ -7597,6 +7731,17 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -7604,6 +7749,88 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': @@ -7682,8 +7909,274 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 0%] Built target pair_align_global_1111 +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ [ 0%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_base.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/simulate_base.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_base.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, @@ -7774,8 +8267,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 1%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_genome.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/simulate_genome.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_genome.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_genome.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_genome.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -7946,92 +8437,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_genome.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_genome.cpp:35: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/istream:42, - from /usr/include/c++/15/sstream:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_genome.h:42: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -8131,13 +8536,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 110 | public std::binary_function < SkewDCStream, @@ -8226,13 +8624,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public std::unary_function { @@ -8254,6 +8645,201 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, + inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, + inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +[ 1%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_genome.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/simulate_genome.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_genome.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_genome.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_genome.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_genome.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_genome.cpp:35: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/istream:42, + from /usr/include/c++/15/sstream:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_genome.h:42: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -8332,8 +8918,7 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -8351,7 +8936,7 @@ 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_genome.h:44: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ @@ -8359,6 +8944,28 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_genome.cpp:106:14: required from here + 106 | if (!open(stream, filename)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -8384,6 +8991,31 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_genome.cpp:106:14: required from here + 106 | if (!open(stream, filename)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -8410,6 +9042,220 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_genome.cpp:106:14: required from here + 106 | if (!open(stream, filename)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Built target pair_align_lcs +make -f apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_local.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_local.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o -MF CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o.d -o CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:40: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -8428,7 +9274,7 @@ 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_genome.h:44: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ @@ -8436,19 +9282,22 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' 739 | return _open(file, fileName, openMode, False()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_genome.cpp:106:14: required from here - 106 | if (!open(stream, filename)) - | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -8458,13 +9307,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' +[ 1%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_illumina.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ @@ -8474,6 +9329,40 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here 699 | if (!open(bamFile, bamFilename)) | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -8484,21 +9373,36 @@ 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' 739 | return _open(file, fileName, openMode, False()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_genome.cpp:106:14: required from here - 106 | if (!open(stream, filename)) +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -8508,46 +9412,111 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' 739 | return _open(file, fileName, openMode, False()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' 739 | return _open(file, fileName, openMode, False()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_genome.cpp:106:14: required from here - 106 | if (!open(stream, filename)) +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -8557,8 +9526,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 1%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_illumina.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, @@ -9025,14 +9992,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -make -f apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o -MF CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o.d -o CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_string.h: In instantiation of 'seqan::ModifiedString::ModifiedString(THost_&&, typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type*) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&; THost = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >; TSpec = seqan::Tag; typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type = void; typename seqan::RemoveReference::Type = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >; typename seqan::RemoveReference::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_illumina.cpp:264:56: required from here @@ -9187,457 +10146,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:37: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:40: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ [ 1%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_sanger.cpp -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, @@ -10260,21 +10770,6 @@ | ^~~~~~~~ [ 1%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o -MF CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o.d -o CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/vcf_materialization.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, - inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, - inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -10858,20 +11353,40 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, + inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, + inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +[ 1%] Linking CXX static library libmason_sim.a +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -P CMakeFiles/mason_sim.dir/cmake_clean_target.cmake +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_sim.dir/link.txt --verbose=1 +/usr/bin/ar qc libmason_sim.a CMakeFiles/mason_sim.dir/external_split_merge.cpp.o CMakeFiles/mason_sim.dir/genomic_variants.cpp.o CMakeFiles/mason_sim.dir/mason_options.cpp.o CMakeFiles/mason_sim.dir/methylation_levels.cpp.o CMakeFiles/mason_sim.dir/simulate_454.cpp.o CMakeFiles/mason_sim.dir/simulate_base.cpp.o CMakeFiles/mason_sim.dir/simulate_genome.cpp.o CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o +/usr/bin/ranlib libmason_sim.a make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target pair_align_lcs -make -f apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_local.dir/depend +[ 1%] Built target mason_sim +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_local.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o -MF CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o.d -o CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp +[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:37: + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:37: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -11049,9 +11564,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 1%] Linking CXX static library libmason_sim.a -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -P CMakeFiles/mason_sim.dir/cmake_clean_target.cmake -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_sim.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -11142,21 +11654,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -11182,21 +11694,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -11206,16 +11718,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/usr/bin/ar qc libmason_sim.a CMakeFiles/mason_sim.dir/external_split_merge.cpp.o CMakeFiles/mason_sim.dir/genomic_variants.cpp.o CMakeFiles/mason_sim.dir/mason_options.cpp.o CMakeFiles/mason_sim.dir/methylation_levels.cpp.o CMakeFiles/mason_sim.dir/simulate_454.cpp.o CMakeFiles/mason_sim.dir/simulate_base.cpp.o CMakeFiles/mason_sim.dir/simulate_genome.cpp.o CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o -/usr/bin/ranlib libmason_sim.a -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target mason_sim -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -11230,21 +11732,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -11254,8 +11756,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -11270,21 +11770,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -11308,21 +11808,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -11332,6 +11832,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Built target pair_align_local +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -11603,16 +12113,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -11643,16 +12153,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -11681,16 +12191,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -11719,16 +12229,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -11757,16 +12267,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -11812,16 +12322,6 @@ 253 | TTarget target; | ^~~~~~ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target pair_align_local -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 1%] Built target pair_align_global_0000 make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -12012,6 +12512,284 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Built target pair_align_global_0001 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -12111,32 +12889,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -12152,31 +12904,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -12190,32 +12917,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -12270,43 +12971,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -12333,46 +12997,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -12424,82 +13048,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -12513,54 +13061,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -12591,16 +13101,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -12629,16 +13139,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -12667,16 +13177,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -12705,16 +13215,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -12760,16 +13270,6 @@ 253 | TTarget target; | ^~~~~~ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target pair_align_global_0001 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 1%] Built target pair_align_global_0010 make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -12960,6 +13460,284 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Built target pair_align_global_0011 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -13087,57 +13865,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -13185,32 +13912,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 2155 | public std::binary_function< @@ -13269,43 +13970,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -13332,122 +13996,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -13461,16 +14009,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -13501,54 +14049,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -13577,16 +14087,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -13615,16 +14125,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -13653,16 +14163,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -13709,16 +14219,6 @@ | ^~~~~~ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 1%] Built target pair_align_global_0100 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target pair_align_global_0011 make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/DependInfo.cmake "--color=" @@ -13862,238 +14362,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:37: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:40: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -14140,32 +14408,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -14256,159 +14498,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -14473,44 +14562,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -14625,36 +14676,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, - inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, - inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, - inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, - inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 1%] Built target pair_align_global_0101 make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/depend @@ -14665,16 +14686,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Built target pair_align_global_0110 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -14856,120 +14867,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:37: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:40: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -14996,19 +14893,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -15060,60 +14944,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -15151,32 +14981,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -15217,57 +15021,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -15344,43 +15097,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -15419,160 +15135,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, @@ -15604,15 +15166,15 @@ 253 | TTarget target; | ^~~~~~ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Built target pair_align_global_1000 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/depend +[ 2%] Built target pair_align_global_0110 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp +[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -15740,16 +15302,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Built target pair_align_global_0111 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -15894,16 +15446,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -15934,16 +15486,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -15958,18 +15510,157 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:37: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Built target pair_align_global_0111 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, + inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, + inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, @@ -16057,44 +15748,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -16123,44 +15776,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -16215,44 +15830,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -16343,16 +15920,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -16383,16 +15960,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -16421,16 +15998,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -16459,16 +16036,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -16497,16 +16074,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -16536,31 +16113,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, - inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, - inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Built target pair_align_global_1001 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/depend +[ 2%] Built target pair_align_global_1000 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp +[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -16649,7 +16211,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -16661,15 +16222,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 2%] Built target pair_align_global_1010 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -16829,6 +16381,222 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, + inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, + inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Built target pair_align_global_1001 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -16928,6 +16696,165 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -16965,21 +16892,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -17020,19 +16932,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -17071,60 +16970,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -17201,6 +17046,212 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, + inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, + inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Built target pair_align_global_1010 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:40: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -17484,21 +17535,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, - inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, - inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 2%] Built target pair_align_global_1011 make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/depend @@ -17509,16 +17545,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/pair_align_global.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1101.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1101.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Built target pair_align_global_1100 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -17700,6 +17726,299 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, + inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, + inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Built target pair_align_global_1100 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -17799,32 +18118,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -17840,31 +18133,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -17878,32 +18146,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -17958,43 +18200,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -18021,46 +18226,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -18112,82 +18277,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -18225,44 +18314,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -18432,21 +18483,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, - inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, - inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 2%] Built target pair_align_global_1101 make -f apps/param_chooser/CMakeFiles/param_chooser.dir/build.make apps/param_chooser/CMakeFiles/param_chooser.dir/depend @@ -18457,16 +18493,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 3%] Building CXX object apps/param_chooser/CMakeFiles/param_chooser.dir/param_chooser.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/param_chooser/CMakeFiles/param_chooser.dir/param_chooser.cpp.o -MF CMakeFiles/param_chooser.dir/param_chooser.cpp.o.d -o CMakeFiles/param_chooser.dir/param_chooser.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/param_chooser.cpp -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 3%] Built target pair_align_global_1110 -make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 3%] Building CXX object apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -MF CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o.d -o CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/test_param_chooser.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/param_chooser.cpp:37: @@ -18567,105 +18593,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/test_param_chooser.cpp:45: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/istream:42, - from /usr/include/c++/15/sstream:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/test_param_chooser.cpp:42: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:33, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/test_param_chooser.cpp:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -18985,18 +18912,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { @@ -19029,13 +18944,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public std::unary_function { @@ -19050,87 +18958,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:30, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:34: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -19138,95 +18965,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 666 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 714 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 782 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 851 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:676:44: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 676 | struct LessRNoGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ @@ -19239,207 +18977,24 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 885 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:730:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 730 | struct LessErrors : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 933 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:748:41: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 748 | struct LessSplicedScore : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:770:45: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 770 | struct LessSplicedScoreGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1814 | struct _qgramComp : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1833 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 46 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 85 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 98 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 112 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 127 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 110 | public std::binary_function < SkewDCStream, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 143 | public std::binary_function < SkewDCStream >, Pack> >, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 99 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 118 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 132 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 175 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 185 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | struct _skew7NCompMulti : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 97 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 141 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 59 | struct _mapInverse : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 164 | struct _mapInverseMulti : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:32: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': @@ -19489,36 +19044,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:676:44: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 676 | struct LessRNoGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:704:47: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 704 | struct LessRNoGEndPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:730:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 730 | struct LessErrors : public ::std::binary_function < TReadMatch, TReadMatch, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:748:41: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 748 | struct LessSplicedScore : public ::std::binary_function < TReadMatch, TReadMatch, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:770:45: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 770 | struct LessSplicedScoreGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -19697,131 +19222,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:32: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:604:11: required from here - 604 | if (!open(seqFile, fname) || atEnd(seqFile)) - | ~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:604:11: required from here - 604 | if (!open(seqFile, fname) || atEnd(seqFile)) - | ~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:222: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_swift.h: In instantiation of 'void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index, Alloc<> >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_swift.h:1929:21: required from 'bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index, Alloc<> >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]' @@ -19858,29 +19258,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/shape_onegapped.h:107:9: note: because 'seqan::Shape, seqan::OneGappedShape>' has user-provided 'seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]' 107 | Shape(Shape const &other): | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:604:11: required from here - 604 | if (!open(seqFile, fname) || atEnd(seqFile)) - | ~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_swift.h: In instantiation of 'void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index, Alloc<> >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_swift.h:1929:21: required from 'bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index, Alloc<> >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Tag >; TSize = int]' 1929 | _patternInit(pattern, errorRate, minLength); @@ -20053,52 +19430,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/shape_gapped.h:281:9: note: because 'seqan::Shape, seqan::GappedShape > >' has user-provided 'seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]' 281 | Shape(Shape const &other): | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:604:11: required from here - 604 | if (!open(seqFile, fname) || atEnd(seqFile)) - | ~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:604:11: required from here - 604 | if (!open(seqFile, fname) || atEnd(seqFile)) - | ~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:385:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; typename RemoveReference::Type = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' @@ -20501,41 +19832,506 @@ 253 | TTarget target; | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::__cxx11::basic_stringstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:829:51: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::__cxx11::basic_stringstream; TSpec = RazerSSpec<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': + inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:829:51, + inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:1107:20, + inlined from 'int main(int, const char**)' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/param_chooser.cpp:339:21: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] 255 | throw BadLexicalCast(target, source); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int main(int, const char**)': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here 72 | BadLexicalCast(TTarget const & target, TSource const & source) : | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 3%] Linking CXX executable ../../bin/test_funcs_param_chooser -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_funcs_param_chooser.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_funcs_param_chooser.dir/link.d CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -o ../../bin/test_funcs_param_chooser -lrt -lz -lbz2 +[ 3%] Linking CXX executable ../../bin/param_chooser +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser && /usr/bin/cmake -E cmake_link_script CMakeFiles/param_chooser.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/param_chooser.dir/link.d CMakeFiles/param_chooser.dir/param_chooser.cpp.o -o ../../bin/param_chooser -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 3%] Built target test_funcs_param_chooser +[ 3%] Built target param_chooser +make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 3%] Building CXX object apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -MF CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o.d -o CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/test_param_chooser.cpp +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 3%] Built target pair_align_global_1110 +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/test_param_chooser.cpp:45: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/istream:42, + from /usr/include/c++/15/sstream:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/test_param_chooser.cpp:42: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ make -f apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make apps/rabema/CMakeFiles/rabema_prepare_sam.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ [ 3%] Building CXX object apps/rabema/CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/rabema/CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -MF CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o.d -o CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/prepare_sam.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:33, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/test_param_chooser.cpp:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:30, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:34: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 666 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 714 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 782 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 851 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 885 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 933 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1814 | struct _qgramComp : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1833 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 46 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 85 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 98 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 112 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 127 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 110 | public std::binary_function < SkewDCStream, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 143 | public std::binary_function < SkewDCStream >, Pack> >, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 99 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 118 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 132 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 175 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 185 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | struct _skew7NCompMulti : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 97 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 141 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 59 | struct _mapInverse : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 164 | struct _mapInverseMulti : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, @@ -20628,6 +20424,70 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:676:44: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 676 | struct LessRNoGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:704:47: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 704 | struct LessRNoGEndPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:730:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 730 | struct LessErrors : public ::std::binary_function < TReadMatch, TReadMatch, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:748:41: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 748 | struct LessSplicedScore : public ::std::binary_function < TReadMatch, TReadMatch, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:770:45: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 770 | struct LessSplicedScoreGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:32: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -20645,6 +20505,53 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:604:11: required from here + 604 | if (!open(seqFile, fname) || atEnd(seqFile)) + | ~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -20658,6 +20565,126 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:604:11: required from here + 604 | if (!open(seqFile, fname) || atEnd(seqFile)) + | ~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:604:11: required from here + 604 | if (!open(seqFile, fname) || atEnd(seqFile)) + | ~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:604:11: required from here + 604 | if (!open(seqFile, fname) || atEnd(seqFile)) + | ~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:604:11: required from here + 604 | if (!open(seqFile, fname) || atEnd(seqFile)) + | ~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': @@ -20736,33 +20763,31 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:829:51, - inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:1107:20, - inlined from 'int main(int, const char**)' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/param_chooser.cpp:339:21: + inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::__cxx11::basic_stringstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:829:51: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] 255 | throw BadLexicalCast(target, source); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int main(int, const char**)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::__cxx11::basic_stringstream; TSpec = RazerSSpec<>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here 72 | BadLexicalCast(TTarget const & target, TSource const & source) : | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 3%] Linking CXX executable ../../bin/param_chooser -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser && /usr/bin/cmake -E cmake_link_script CMakeFiles/param_chooser.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/param_chooser.dir/link.d CMakeFiles/param_chooser.dir/param_chooser.cpp.o -o ../../bin/param_chooser -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 3%] Built target param_chooser -make -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 3%] Building CXX object apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -MF CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o.d -o CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/rabema_build_gold_standard.cpp +[ 3%] Linking CXX executable ../../bin/test_funcs_param_chooser +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_funcs_param_chooser.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -20784,6 +20809,17 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_funcs_param_chooser.dir/link.d CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -o ../../bin/test_funcs_param_chooser -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 3%] Built target test_funcs_param_chooser +make -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 3%] Building CXX object apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -MF CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o.d -o CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/rabema_build_gold_standard.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -21496,19 +21532,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 3%] Linking CXX executable ../../bin/rabema_prepare_sam -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/cmake -E cmake_link_script CMakeFiles/rabema_prepare_sam.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/rabema_prepare_sam.dir/link.d CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -o ../../bin/rabema_prepare_sam -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 3%] Built target rabema_prepare_sam -make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_evaluate.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 3%] Building CXX object apps/rabema/CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/rabema/CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o -MF CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o.d -o CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/rabema_evaluate.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -21530,6 +21553,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 3%] Linking CXX executable ../../bin/rabema_prepare_sam +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/cmake -E cmake_link_script CMakeFiles/rabema_prepare_sam.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/rabema_prepare_sam.dir/link.d CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -o ../../bin/rabema_prepare_sam -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 3%] Built target rabema_prepare_sam +make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_evaluate.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 3%] Building CXX object apps/rabema/CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/rabema/CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o -MF CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o.d -o CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/rabema_evaluate.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -22702,233 +22738,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 3%] Building CXX object apps/razers/CMakeFiles/razers.dir/razers.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.5.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/razers/CMakeFiles/razers.dir/razers.cpp.o -MF CMakeFiles/razers.dir/razers.cpp.o.d -o CMakeFiles/razers.dir/razers.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/razers.cpp -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -23011,30 +22820,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -23461,6 +23246,257 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -27483,6 +27519,17 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_string.h:117:53: note: initializing argument 1 of 'seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 117 | ModifiedString(typename Parameter_::Type host) : | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:55, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/razers.h:32: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_base.h: In instantiation of 'typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = Pigeonhole; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]': @@ -32281,17 +32328,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TFunctor = seqan::FunctorComplement >; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/razers_matepairs_parallel.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder, seqan::Alloc<> >, seqan::Swift > > >, seqan::Finder, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSCoreOptions >, seqan::String >, seqan::RazerSMode > >*; TParam = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder, seqan::Alloc<> >, seqan::Swift > > >, seqan::Finder, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSCoreOptions >, seqan::String >, seqan::RazerSMode > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder, Alloc<> >, Swift > > >, Finder, Alloc<> >, InfixSegment>, Swift > > >, Pattern, Alloc<> >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSCoreOptions >, String >, RazerSMode > >*; TParam = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder, Alloc<> >, Swift > > >, Finder, Alloc<> >, InfixSegment>, Swift > > >, Pattern, Alloc<> >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSCoreOptions >, String >, RazerSMode > >]' 305 | TConstructor::construct(it, std::forward(param_)); @@ -34715,46 +34751,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:993:51, - inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1286:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1011:66, - inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1286:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1021:53, - inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1286:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -35161,11 +35157,53 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:993:51, + inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1286:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1011:66, + inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1286:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1021:53, + inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1286:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ [ 4%] Linking CXX executable ../../bin/sak cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sak && /usr/bin/cmake -E cmake_link_script CMakeFiles/sak.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/sak.dir/link.d CMakeFiles/sak.dir/sak.cpp.o -o ../../bin/sak -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 4%] Built target sak +[ 4%] Building CXX object apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"3.5.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o -MF CMakeFiles/razers3.dir/param_tabs.cpp.o.d -o CMakeFiles/razers3.dir/param_tabs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/param_tabs.cpp make -f apps/sam2matrix/CMakeFiles/sam2matrix.dir/build.make apps/sam2matrix/CMakeFiles/sam2matrix.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sam2matrix /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sam2matrix/CMakeFiles/sam2matrix.dir/DependInfo.cmake "--color=" @@ -39509,8 +39547,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -[ 5%] Building CXX object apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"3.5.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o -MF CMakeFiles/razers3.dir/param_tabs.cpp.o.d -o CMakeFiles/razers3.dir/param_tabs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/param_tabs.cpp [ 5%] Linking CXX executable ../../bin/razers3 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 && /usr/bin/cmake -E cmake_link_script CMakeFiles/razers3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/razers3.dir/link.d CMakeFiles/razers3.dir/razers.cpp.o CMakeFiles/razers3.dir/param_tabs.cpp.o -o ../../bin/razers3 -lrt -lz -lbz2 @@ -43886,17 +43922,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const long unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = long unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_fstream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' @@ -44157,6 +44182,17 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const long unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = long unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -45107,18 +45143,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::read(TFile&, String&, String&, const TNames&, TCoffeeLib) [with TFile = std::basic_ifstream; TFragment = Fragment<>; TSpec = Alloc<>; TScoreValue = int; TSpec2 = Alloc<>; TNames = StringSet > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa/graph_align_tcoffee_io.h:209:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::read(TFile&, String&, String&, const TNames&, TCoffeeLib) [with TFile = std::basic_ifstream; TFragment = Fragment<>; TSpec = Alloc<>; TScoreValue = int; TSpec2 = Alloc<>; TNames = StringSet > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:385:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; typename RemoveReference::Type = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' 385 | return _beginDefault(me, tag_); @@ -45649,6 +45673,18 @@ 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::read(TFile&, String&, String&, const TNames&, TCoffeeLib) [with TFile = std::basic_ifstream; TFragment = Fragment<>; TSpec = Alloc<>; TScoreValue = int; TSpec2 = Alloc<>; TNames = StringSet > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa/graph_align_tcoffee_io.h:209:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::read(TFile&, String&, String&, const TNames&, TCoffeeLib) [with TFile = std::basic_ifstream; TFragment = Fragment<>; TSpec = Alloc<>; TScoreValue = int; TSpec2 = Alloc<>; TNames = StringSet > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: @@ -46030,11 +46066,11 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 5%] Linking CXX executable ../../bin/seqan_tcoffee -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqan_tcoffee && /usr/bin/cmake -E cmake_link_script CMakeFiles/seqan_tcoffee.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/seqan_tcoffee.dir/link.d CMakeFiles/seqan_tcoffee.dir/seqan_tcoffee.cpp.o -o ../../bin/seqan_tcoffee -lrt -lz -lbz2 +[ 5%] Linking CXX executable ../../bin/seqcons2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqcons2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/seqcons2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/seqcons2.dir/link.d CMakeFiles/seqcons2.dir/seqcons.cpp.o CMakeFiles/seqcons2.dir/seqcons_app.cpp.o CMakeFiles/seqcons2.dir/seqcons_options.cpp.o -o ../../bin/seqcons2 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 5%] Built target seqan_tcoffee +[ 5%] Built target seqcons2 make -f apps/sgip/CMakeFiles/sgip.dir/build.make apps/sgip/CMakeFiles/sgip.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip/CMakeFiles/sgip.dir/DependInfo.cmake "--color=" @@ -46155,11 +46191,11 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 5%] Linking CXX executable ../../bin/seqcons2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqcons2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/seqcons2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/seqcons2.dir/link.d CMakeFiles/seqcons2.dir/seqcons.cpp.o CMakeFiles/seqcons2.dir/seqcons_app.cpp.o CMakeFiles/seqcons2.dir/seqcons_options.cpp.o -o ../../bin/seqcons2 -lrt -lz -lbz2 +[ 5%] Linking CXX executable ../../bin/seqan_tcoffee +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqan_tcoffee && /usr/bin/cmake -E cmake_link_script CMakeFiles/seqan_tcoffee.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/seqan_tcoffee.dir/link.d CMakeFiles/seqan_tcoffee.dir/seqan_tcoffee.cpp.o -o ../../bin/seqan_tcoffee -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 5%] Built target seqcons2 +[ 5%] Built target seqan_tcoffee make -f apps/snp_store/CMakeFiles/snp_store.dir/build.make apps/snp_store/CMakeFiles/snp_store.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/snp_store/CMakeFiles/snp_store.dir/DependInfo.cmake "--color=" @@ -48291,17 +48327,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/shape_gapped.h:281:9: note: because 'seqan::Shape, seqan::GappedShape > >' has user-provided 'seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]' 281 | Shape(Shape const &other): | ^~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:385:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; typename RemoveReference::Type = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' 385 | return _beginDefault(me, tag_); @@ -49761,16 +49786,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' 305 | TConstructor::construct(it, std::forward(param_)); @@ -49812,6 +49827,48 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -50075,27 +50132,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -73777,6 +73813,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 8%] Building CXX object tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/test_align_parallel_interface.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/test_align_parallel_interface.cpp.o -MF CMakeFiles/test_align_parallel_interface.dir/test_align_parallel_interface.cpp.o.d -o CMakeFiles/test_align_parallel_interface.dir/test_align_parallel_interface.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel/test_align_parallel_interface.cpp +[ 8%] Linking CXX executable ../../bin/test_align_simd_local_variable_length_avx2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_simd_local_variable_length_avx2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_simd_local_variable_length_avx2.dir/link.d CMakeFiles/test_align_simd_local_variable_length_avx2.dir/test_align_simd_local_variable_length.cpp.o -o ../../bin/test_align_simd_local_variable_length_avx2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 8%] Built target test_align_simd_local_variable_length_avx2 +make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 8%] Building CXX object tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/test_align_parallel_interface.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -msse4 -MD -MT tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/test_align_parallel_interface.cpp.o -MF CMakeFiles/test_align_parallel_interface_sse4.dir/test_align_parallel_interface.cpp.o.d -o CMakeFiles/test_align_parallel_interface_sse4.dir/test_align_parallel_interface.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel/test_align_parallel_interface.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -73904,19 +73953,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 8%] Linking CXX executable ../../bin/test_align_simd_local_variable_length_avx2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_simd_local_variable_length_avx2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_simd_local_variable_length_avx2.dir/link.d CMakeFiles/test_align_simd_local_variable_length_avx2.dir/test_align_simd_local_variable_length.cpp.o -o ../../bin/test_align_simd_local_variable_length_avx2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 8%] Built target test_align_simd_local_variable_length_avx2 -make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 8%] Building CXX object tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/test_align_parallel_interface.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -msse4 -MD -MT tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/test_align_parallel_interface.cpp.o -MF CMakeFiles/test_align_parallel_interface_sse4.dir/test_align_parallel_interface.cpp.o.d -o CMakeFiles/test_align_parallel_interface_sse4.dir/test_align_parallel_interface.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel/test_align_parallel_interface.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -74325,11 +74361,11 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 8%] Linking CXX executable ../../bin/test_align_parallel_interface_avx2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_parallel_interface_avx2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_parallel_interface_avx2.dir/link.d CMakeFiles/test_align_parallel_interface_avx2.dir/test_align_parallel_interface.cpp.o -o ../../bin/test_align_parallel_interface_avx2 -lrt -lz -lbz2 +[ 8%] Linking CXX executable ../../bin/test_align_parallel_algorithm_sse4 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_parallel_algorithm_sse4.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_parallel_algorithm_sse4.dir/link.d CMakeFiles/test_align_parallel_algorithm_sse4.dir/test_align_parallel_algorithm.cpp.o -o ../../bin/test_align_parallel_algorithm_sse4 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 8%] Built target test_align_parallel_interface_avx2 +[ 8%] Built target test_align_parallel_algorithm_sse4 make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/DependInfo.cmake "--color=" @@ -74466,11 +74502,11 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 8%] Linking CXX executable ../../bin/test_align_parallel_algorithm_sse4 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_parallel_algorithm_sse4.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_parallel_algorithm_sse4.dir/link.d CMakeFiles/test_align_parallel_algorithm_sse4.dir/test_align_parallel_algorithm.cpp.o -o ../../bin/test_align_parallel_algorithm_sse4 -lrt -lz -lbz2 +[ 8%] Linking CXX executable ../../bin/test_align_parallel_interface_avx2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_parallel_interface_avx2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_parallel_interface_avx2.dir/link.d CMakeFiles/test_align_parallel_interface_avx2.dir/test_align_parallel_interface.cpp.o -o ../../bin/test_align_parallel_interface_avx2 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 8%] Built target test_align_parallel_algorithm_sse4 +[ 8%] Built target test_align_parallel_interface_avx2 make -f tests/align_profile/CMakeFiles/test_align_profile.dir/build.make tests/align_profile/CMakeFiles/test_align_profile.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_profile /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile/CMakeFiles/test_align_profile.dir/DependInfo.cmake "--color=" @@ -74966,6 +75002,8 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 9%] Linking CXX executable ../../bin/test_align_parallel_algorithm_avx2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_parallel_algorithm_avx2.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -74973,6 +75011,12 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_parallel_algorithm_avx2.dir/link.d CMakeFiles/test_align_parallel_algorithm_avx2.dir/test_align_parallel_algorithm.cpp.o -o ../../bin/test_align_parallel_algorithm_avx2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 9%] Built target test_align_parallel_algorithm_avx2 +make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_split /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split/CMakeFiles/test_align_split.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align_profile.h:55: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align_profile/add_to_profile.h: In instantiation of 'void seqan::addToProfile(String >&, String&, int, int) [with TChar = SimpleType; TValue = int; TSpec = void; TSpec2 = Alloc<>]': /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_profile/test_align_profile.cpp:145:17: required from 'void SEQAN_TEST_test_align_profile_add_to_profile() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' @@ -74988,6 +75032,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter, int> > >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps, int> > >]' 91 | Iter(Iter const & other) : | ^~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 10%] Building CXX object tests/align_split/CMakeFiles/test_align_split.dir/test_align_split.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/align_split/CMakeFiles/test_align_split.dir/test_align_split.cpp.o -MF CMakeFiles/test_align_split.dir/test_align_split.cpp.o.d -o CMakeFiles/test_align_split.dir/test_align_split.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_split/test_align_split.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45: @@ -75067,32 +75116,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -[ 9%] Linking CXX executable ../../bin/test_align_parallel_algorithm_avx2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_parallel_algorithm_avx2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_parallel_algorithm_avx2.dir/link.d CMakeFiles/test_align_parallel_algorithm_avx2.dir/test_align_parallel_algorithm.cpp.o -o ../../bin/test_align_parallel_algorithm_avx2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 9%] Built target test_align_parallel_algorithm_avx2 -make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_split /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split/CMakeFiles/test_align_split.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 10%] Building CXX object tests/align_split/CMakeFiles/test_align_split.dir/test_align_split.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/align_split/CMakeFiles/test_align_split.dir/test_align_split.cpp.o -MF CMakeFiles/test_align_split.dir/test_align_split.cpp.o.d -o CMakeFiles/test_align_split.dir/test_align_split.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_split/test_align_split.cpp -[ 11%] Linking CXX executable ../../bin/test_align_profile -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_profile.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_profile.dir/link.d CMakeFiles/test_align_profile.dir/test_align_profile.cpp.o -o ../../bin/test_align_profile -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 11%] Built target test_align_profile -make -f tests/alignment_free/CMakeFiles/test_alignment_free.dir/build.make tests/alignment_free/CMakeFiles/test_alignment_free.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/alignment_free /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free/CMakeFiles/test_alignment_free.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/alignment_free/CMakeFiles/test_alignment_free.dir/build.make tests/alignment_free/CMakeFiles/test_alignment_free.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 11%] Building CXX object tests/alignment_free/CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/alignment_free/CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o -MF CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o.d -o CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/alignment_free/test_alignment_free.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_split/test_align_split.cpp:38: @@ -75187,6 +75210,51 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align_split.h:44, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_split/test_align_split.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_split/test_align_split.cpp:40: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +[ 11%] Linking CXX executable ../../bin/test_align_profile +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_profile.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_profile.dir/link.d CMakeFiles/test_align_profile.dir/test_align_profile.cpp.o -o ../../bin/test_align_profile -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 11%] Built target test_align_profile +make -f tests/alignment_free/CMakeFiles/test_alignment_free.dir/build.make tests/alignment_free/CMakeFiles/test_alignment_free.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/alignment_free /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free/CMakeFiles/test_alignment_free.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/alignment_free/CMakeFiles/test_alignment_free.dir/build.make tests/alignment_free/CMakeFiles/test_alignment_free.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 11%] Building CXX object tests/alignment_free/CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/alignment_free/CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o -MF CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o.d -o CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/alignment_free/test_alignment_free.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/alignment_free/test_alignment_free.cpp:38: @@ -75284,38 +75352,6 @@ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align_split.h:44, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_split/test_align_split.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_split/test_align_split.cpp:40: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/statistics.h:40, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/alignment_free/test_alignment_free.cpp:40: @@ -75666,11 +75702,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter >, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = seqan::StringSet >]' 105 | Iter(Iter const & other_) : | ^~~~ -[ 11%] Linking CXX executable ../../bin/test_alignment_free -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_alignment_free.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_alignment_free.dir/link.d CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o -o ../../bin/test_alignment_free -lrt -lz -lbz2 +[ 11%] Linking CXX executable ../../bin/test_align_split +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_split.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_split.dir/link.d CMakeFiles/test_align_split.dir/test_align_split.cpp.o -o ../../bin/test_align_split -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 11%] Built target test_alignment_free +[ 11%] Built target test_align_split make -f tests/arg_parse/CMakeFiles/test_arg_parse.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse.dir/DependInfo.cmake "--color=" @@ -75679,6 +75715,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 11%] Building CXX object tests/arg_parse/CMakeFiles/test_arg_parse.dir/test_arg_parse.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/arg_parse/CMakeFiles/test_arg_parse.dir/test_arg_parse.cpp.o -MF CMakeFiles/test_arg_parse.dir/test_arg_parse.cpp.o.d -o CMakeFiles/test_arg_parse.dir/test_arg_parse.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse.cpp +[ 11%] Linking CXX executable ../../bin/test_alignment_free +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_alignment_free.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_alignment_free.dir/link.d CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o -o ../../bin/test_alignment_free -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 11%] Built target test_alignment_free +make -f tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 11%] Building CXX object tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o -MF CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o.d -o CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse_version_check.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -75785,19 +75834,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse.h:513:71: note: 'const std::string' {aka 'const std::__cxx11::basic_string'} temporary created here 513 | std::vector const & values = getOptionValues(parser, "string"); | ^~~~~~~~ -[ 11%] Linking CXX executable ../../bin/test_align_split -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_split.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_split.dir/link.d CMakeFiles/test_align_split.dir/test_align_split.cpp.o -o ../../bin/test_align_split -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 11%] Built target test_align_split -make -f tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 11%] Building CXX object tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o -MF CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o.d -o CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse_version_check.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -75899,11 +75935,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -[ 11%] Linking CXX executable ../../bin/test_arg_parse -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_arg_parse.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_arg_parse.dir/link.d CMakeFiles/test_arg_parse.dir/test_arg_parse.cpp.o -o ../../bin/test_arg_parse -lrt -lz -lbz2 +[ 11%] Linking CXX executable ../../bin/test_arg_parse_version_check +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_arg_parse_version_check.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_arg_parse_version_check.dir/link.d CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o -o ../../bin/test_arg_parse_version_check -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 11%] Built target test_arg_parse +[ 11%] Built target test_arg_parse_version_check make -f tests/bam_io/CMakeFiles/test_bam_io.dir/build.make tests/bam_io/CMakeFiles/test_bam_io.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/bam_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io/CMakeFiles/test_bam_io.dir/DependInfo.cmake "--color=" @@ -76007,8 +76043,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 11%] Linking CXX executable ../../bin/test_arg_parse_version_check -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_arg_parse_version_check.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -76095,17 +76129,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_arg_parse_version_check.dir/link.d CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o -o ../../bin/test_arg_parse_version_check -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 11%] Built target test_arg_parse_version_check -make -f tests/basic/CMakeFiles/test_basic_exception.dir/build.make tests/basic/CMakeFiles/test_basic_exception.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_exception.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_exception.dir/build.make tests/basic/CMakeFiles/test_basic_exception.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 11%] Building CXX object tests/basic/CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o -MF CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o.d -o CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_exception.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -76274,6 +76297,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +[ 11%] Linking CXX executable ../../bin/test_arg_parse +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_arg_parse.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_arg_parse.dir/link.d CMakeFiles/test_arg_parse.dir/test_arg_parse.cpp.o -o ../../bin/test_arg_parse -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 11%] Built target test_arg_parse +make -f tests/basic/CMakeFiles/test_basic_exception.dir/build.make tests/basic/CMakeFiles/test_basic_exception.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_exception.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/basic/CMakeFiles/test_basic_exception.dir/build.make tests/basic/CMakeFiles/test_basic_exception.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 11%] Building CXX object tests/basic/CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o -MF CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o.d -o CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_exception.cpp [ 11%] Linking CXX executable ../../bin/test_basic_exception cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_exception.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_exception.dir/link.d CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o -o ../../bin/test_basic_exception -lrt -lz -lbz2 @@ -76287,19 +76323,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 11%] Building CXX object tests/basic/CMakeFiles/test_basic_metaprogramming.dir/test_basic_metaprogramming.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_metaprogramming.dir/test_basic_metaprogramming.cpp.o -MF CMakeFiles/test_basic_metaprogramming.dir/test_basic_metaprogramming.cpp.o.d -o CMakeFiles/test_basic_metaprogramming.dir/test_basic_metaprogramming.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_metaprogramming.cpp -[ 11%] Linking CXX executable ../../bin/test_basic_metaprogramming -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_metaprogramming.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_metaprogramming.dir/link.d CMakeFiles/test_basic_metaprogramming.dir/test_basic_metaprogramming.cpp.o -o ../../bin/test_basic_metaprogramming -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 11%] Built target test_basic_metaprogramming -make -f tests/basic/CMakeFiles/test_basic_fundamental.dir/build.make tests/basic/CMakeFiles/test_basic_fundamental.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_fundamental.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_fundamental.dir/build.make tests/basic/CMakeFiles/test_basic_fundamental.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 11%] Building CXX object tests/basic/CMakeFiles/test_basic_fundamental.dir/test_basic_fundamental.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_fundamental.dir/test_basic_fundamental.cpp.o -MF CMakeFiles/test_basic_fundamental.dir/test_basic_fundamental.cpp.o.d -o CMakeFiles/test_basic_fundamental.dir/test_basic_fundamental.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_fundamental.cpp In file included from /usr/include/string.h:548, from /usr/include/c++/15/cstring:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:152: @@ -76325,6 +76348,50 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ +[ 11%] Linking CXX executable ../../bin/test_basic_metaprogramming +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_metaprogramming.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_metaprogramming.dir/link.d CMakeFiles/test_basic_metaprogramming.dir/test_basic_metaprogramming.cpp.o -o ../../bin/test_basic_metaprogramming -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 11%] Built target test_basic_metaprogramming +make -f tests/basic/CMakeFiles/test_basic_fundamental.dir/build.make tests/basic/CMakeFiles/test_basic_fundamental.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_fundamental.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/basic/CMakeFiles/test_basic_fundamental.dir/build.make tests/basic/CMakeFiles/test_basic_fundamental.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 11%] Building CXX object tests/basic/CMakeFiles/test_basic_fundamental.dir/test_basic_fundamental.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_fundamental.dir/test_basic_fundamental.cpp.o -MF CMakeFiles/test_basic_fundamental.dir/test_basic_fundamental.cpp.o.d -o CMakeFiles/test_basic_fundamental.dir/test_basic_fundamental.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_fundamental.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ [ 11%] Linking CXX executable ../../bin/test_basic_fundamental cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_fundamental.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_fundamental.dir/link.d CMakeFiles/test_basic_fundamental.dir/test_basic_fundamental.cpp.o -o ../../bin/test_basic_fundamental -lrt -lz -lbz2 @@ -76408,29 +76475,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ [ 11%] Linking CXX executable ../../bin/test_basic_concept cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_concept.dir/link.txt --verbose=1 -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_concept.dir/link.d CMakeFiles/test_basic_concept.dir/test_basic_concept.cpp.o -o ../../bin/test_basic_concept -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 11%] Built target test_basic_concept @@ -76442,16 +76488,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 11%] Building CXX object tests/basic/CMakeFiles/test_basic_alphabet.dir/test_basic_alphabet.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_alphabet.dir/test_basic_alphabet.cpp.o -MF CMakeFiles/test_basic_alphabet.dir/test_basic_alphabet.cpp.o.d -o CMakeFiles/test_basic_alphabet.dir/test_basic_alphabet.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_alphabet.cpp -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ [ 11%] Linking CXX executable ../../bin/test_basic_alphabet cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_alphabet.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_alphabet.dir/link.d CMakeFiles/test_basic_alphabet.dir/test_basic_alphabet.cpp.o -o ../../bin/test_basic_alphabet -lrt -lz -lbz2 @@ -76576,23 +76612,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = int; T2 = int; T3 = int]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -[ 11%] Linking CXX executable ../../bin/test_basic_aggregate -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_aggregate.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_aggregate.dir/link.d CMakeFiles/test_basic_aggregate.dir/test_basic_aggregate.cpp.o -o ../../bin/test_basic_aggregate -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 11%] Built target test_basic_aggregate -make -f tests/basic/CMakeFiles/test_basic_allocator.dir/build.make tests/basic/CMakeFiles/test_basic_allocator.dir/depend /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_bam_io_bam_file_isOpen_fileIn() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_allocator.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_allocator.dir/build.make tests/basic/CMakeFiles/test_basic_allocator.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 11%] Building CXX object tests/basic/CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o -MF CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o.d -o CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_allocator.cpp In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -76805,6 +76828,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 11%] Linking CXX executable ../../bin/test_basic_aggregate +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_aggregate.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_aggregate.dir/link.d CMakeFiles/test_basic_aggregate.dir/test_basic_aggregate.cpp.o -o ../../bin/test_basic_aggregate -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 11%] Built target test_basic_aggregate +make -f tests/basic/CMakeFiles/test_basic_allocator.dir/build.make tests/basic/CMakeFiles/test_basic_allocator.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_allocator.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/basic/CMakeFiles/test_basic_allocator.dir/build.make tests/basic/CMakeFiles/test_basic_allocator.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 11%] Building CXX object tests/basic/CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o -MF CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o.d -o CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_allocator.cpp [ 12%] Linking CXX executable ../../bin/test_basic_allocator cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_allocator.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_allocator.dir/link.d CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o -o ../../bin/test_basic_allocator -lrt -lz -lbz2 @@ -76844,11 +76880,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 12%] Building CXX object tests/basic/CMakeFiles/test_basic_smart_pointer.dir/test_basic_smart_pointer.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_smart_pointer.dir/test_basic_smart_pointer.cpp.o -MF CMakeFiles/test_basic_smart_pointer.dir/test_basic_smart_pointer.cpp.o.d -o CMakeFiles/test_basic_smart_pointer.dir/test_basic_smart_pointer.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_smart_pointer.cpp -[ 12%] Linking CXX executable ../../bin/test_basic_smart_pointer -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_smart_pointer.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_smart_pointer.dir/link.d CMakeFiles/test_basic_smart_pointer.dir/test_basic_smart_pointer.cpp.o -o ../../bin/test_basic_smart_pointer -lrt -lz -lbz2 +[ 12%] Linking CXX executable ../../bin/test_bam_io +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_bam_io.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_bam_io.dir/link.d CMakeFiles/test_bam_io.dir/test_bam_io.cpp.o -o ../../bin/test_bam_io -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 12%] Built target test_basic_smart_pointer +[ 12%] Built target test_bam_io make -f tests/basic/CMakeFiles/test_basic_container.dir/build.make tests/basic/CMakeFiles/test_basic_container.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_container.dir/DependInfo.cmake "--color=" @@ -76857,11 +76893,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 12%] Building CXX object tests/basic/CMakeFiles/test_basic_container.dir/test_basic_container.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_container.dir/test_basic_container.cpp.o -MF CMakeFiles/test_basic_container.dir/test_basic_container.cpp.o.d -o CMakeFiles/test_basic_container.dir/test_basic_container.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_container.cpp -[ 12%] Linking CXX executable ../../bin/test_basic_container -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_container.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_container.dir/link.d CMakeFiles/test_basic_container.dir/test_basic_container.cpp.o -o ../../bin/test_basic_container -lrt -lz -lbz2 +[ 12%] Linking CXX executable ../../bin/test_basic_smart_pointer +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_smart_pointer.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_smart_pointer.dir/link.d CMakeFiles/test_basic_smart_pointer.dir/test_basic_smart_pointer.cpp.o -o ../../bin/test_basic_smart_pointer -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 12%] Built target test_basic_container +[ 12%] Built target test_basic_smart_pointer make -f tests/basic/CMakeFiles/test_basic_proxy.dir/build.make tests/basic/CMakeFiles/test_basic_proxy.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_proxy.dir/DependInfo.cmake "--color=" @@ -76870,21 +76906,21 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 12%] Building CXX object tests/basic/CMakeFiles/test_basic_proxy.dir/test_basic_proxy.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_proxy.dir/test_basic_proxy.cpp.o -MF CMakeFiles/test_basic_proxy.dir/test_basic_proxy.cpp.o.d -o CMakeFiles/test_basic_proxy.dir/test_basic_proxy.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_proxy.cpp -[ 12%] Linking CXX executable ../../bin/test_bam_io -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_bam_io.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_bam_io.dir/link.d CMakeFiles/test_bam_io.dir/test_bam_io.cpp.o -o ../../bin/test_bam_io -lrt -lz -lbz2 +[ 12%] Linking CXX executable ../../bin/test_basic_container +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_container.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_container.dir/link.d CMakeFiles/test_basic_container.dir/test_basic_container.cpp.o -o ../../bin/test_basic_container -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 12%] Built target test_bam_io +[ 12%] Built target test_basic_container make -f tests/basic/CMakeFiles/test_basic_iterator.dir/build.make tests/basic/CMakeFiles/test_basic_iterator.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_iterator.dir/DependInfo.cmake "--color=" -[ 12%] Linking CXX executable ../../bin/test_basic_proxy make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/basic/CMakeFiles/test_basic_iterator.dir/build.make tests/basic/CMakeFiles/test_basic_iterator.dir/build -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_proxy.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 12%] Building CXX object tests/basic/CMakeFiles/test_basic_iterator.dir/test_basic_iterator.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_iterator.dir/test_basic_iterator.cpp.o -MF CMakeFiles/test_basic_iterator.dir/test_basic_iterator.cpp.o.d -o CMakeFiles/test_basic_iterator.dir/test_basic_iterator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_iterator.cpp +[ 12%] Linking CXX executable ../../bin/test_basic_proxy +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_proxy.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_proxy.dir/link.d CMakeFiles/test_basic_proxy.dir/test_basic_proxy.cpp.o -o ../../bin/test_basic_proxy -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 12%] Built target test_basic_proxy @@ -77095,17 +77131,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/blast/test_blast.cpp:41: @@ -77186,6 +77211,17 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -77563,6 +77599,10 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 14%] Building CXX object tests/consensus/CMakeFiles/test_consensus.dir/test_consensus.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/consensus/CMakeFiles/test_consensus.dir/test_consensus.cpp.o -MF CMakeFiles/test_consensus.dir/test_consensus.cpp.o.d -o CMakeFiles/test_consensus.dir/test_consensus.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/consensus/test_consensus.cpp +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -77898,10 +77938,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -78061,6 +78097,27 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long unsigned int; TSource = std::__cxx11::basic_string]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const long unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = long unsigned int; TSource = std::__cxx11::basic_string]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = std::__cxx11::basic_string]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = std::__cxx11::basic_string]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -78907,27 +78964,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long unsigned int; TSource = std::__cxx11::basic_string]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const long unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = long unsigned int; TSource = std::__cxx11::basic_string]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = std::__cxx11::basic_string]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = std::__cxx11::basic_string]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = Segment, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] 255 | throw BadLexicalCast(target, source); @@ -79255,10 +79291,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_consensus_realign_one_contig_small() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ [ 14%] Linking CXX executable ../../bin/test_blast cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_blast.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_blast.dir/link.d CMakeFiles/test_blast.dir/test_blast.cpp.o -o ../../bin/test_blast -lrt -lz -lbz2 @@ -79362,6 +79394,10 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_consensus_realign_one_contig_small() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:45, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/consensus_v2/test_consensus_v2.cpp:41: @@ -79552,8 +79588,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 14%] Linking CXX executable ../../bin/test_consensus -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_consensus.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -79755,17 +79789,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_consensus.dir/link.d CMakeFiles/test_consensus.dir/test_consensus.cpp.o -o ../../bin/test_consensus -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 14%] Built target test_consensus -make -f tests/find/CMakeFiles/test_find.dir/build.make tests/find/CMakeFiles/test_find.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/find /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find/CMakeFiles/test_find.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/find/CMakeFiles/test_find.dir/build.make tests/find/CMakeFiles/test_find.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 14%] Building CXX object tests/find/CMakeFiles/test_find.dir/test_find.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/find/CMakeFiles/test_find.dir/test_find.cpp.o -MF CMakeFiles/test_find.dir/test_find.cpp.o.d -o CMakeFiles/test_find.dir/test_find.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/find/test_find.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -79931,83 +79954,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/find/test_find.cpp:54: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/find/test_find.cpp:37: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign.h:55, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_aligner_interface.h:38, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:68: @@ -80036,13 +79982,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' 205 | return TProxy(it); @@ -80608,16 +80547,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h: In instantiation of 'static void seqan::AppendValueToString_::appendValue_(T&, TValue&&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&; TExpand = seqan::Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1366:54: required from 'void seqan::appendValue(String&, TValue&&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = const Segment, Alloc<> >, InfixSegment>&; TExpand = TagGenerous_]' 1366 | AppendValueToString_ >::appendValue_(me, std::forward(_value)); @@ -80731,21 +80660,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 117 | : data_container(_toPointer(container_)), @@ -81439,6 +81353,128 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +[ 14%] Linking CXX executable ../../bin/test_consensus +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_consensus.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_consensus.dir/link.d CMakeFiles/test_consensus.dir/test_consensus.cpp.o -o ../../bin/test_consensus -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 14%] Built target test_consensus +make -f tests/find/CMakeFiles/test_find.dir/build.make tests/find/CMakeFiles/test_find.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/find /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find/CMakeFiles/test_find.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/find/CMakeFiles/test_find.dir/build.make tests/find/CMakeFiles/test_find.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 14%] Building CXX object tests/find/CMakeFiles/test_find.dir/test_find.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/find/CMakeFiles/test_find.dir/test_find.cpp.o -MF CMakeFiles/test_find.dir/test_find.cpp.o.d -o CMakeFiles/test_find.dir/test_find.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/find/test_find.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/find/test_find.cpp:54: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/find/test_find.cpp:37: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/find/test_find.cpp:53: @@ -85074,8 +85110,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 17%] Linking CXX executable ../../bin/test_graph_types_types -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_graph_types_types.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -85522,17 +85556,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_graph_types_types.dir/link.d CMakeFiles/test_graph_types_types.dir/test_graph_types_types.cpp.o -o ../../bin/test_graph_types_types -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 17%] Built target test_graph_types_types -make -f tests/index/CMakeFiles/test_index_crosscompare_char.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_crosscompare_char.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 17%] Building CXX object tests/index/CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o -MF CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o.d -o CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' 881 | writer->push(Val_); @@ -86757,6 +86780,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +[ 17%] Linking CXX executable ../../bin/test_graph_types_types +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_graph_types_types.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_graph_types_types.dir/link.d CMakeFiles/test_graph_types_types.dir/test_graph_types_types.cpp.o -o ../../bin/test_graph_types_types -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 17%] Built target test_graph_types_types +make -f tests/index/CMakeFiles/test_index_crosscompare_char.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_crosscompare_char.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 17%] Building CXX object tests/index/CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o -MF CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o.d -o CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -90171,6 +90207,38 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::MMap<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::MMap<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: +In member function 'seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; unsigned int m = 3; TPack = seqan::Tag]', + inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, + inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, + inlined from 'bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1376:22, + inlined from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:241:20: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:203:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] + 203 | outRef->i2.i[skipped++] = 0; + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 3 into destination object 'seqan::Tuple >::i' of size 3 + 141 | typename StoredTupleValue_::Type i[SIZE]; + | ^ +In member function 'seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; unsigned int m = 3; TPack = seqan::Tag]', + inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, + inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, + inlined from 'bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1376:22, + inlined from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:241:20: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:182:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] + 182 | outRef->i2.i[skipped++] = *in; + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 3 into destination object 'seqan::Tuple >::i' of size 3 + 141 | typename StoredTupleValue_::Type i[SIZE]; + | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void seqan::SEQAN_TEST_testIndexCreation() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' @@ -91288,38 +91356,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: -In member function 'seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; unsigned int m = 3; TPack = seqan::Tag]', - inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, - inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, - inlined from 'bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1376:22, - inlined from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:241:20: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:203:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] - 203 | outRef->i2.i[skipped++] = 0; - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 3 into destination object 'seqan::Tuple >::i' of size 3 - 141 | typename StoredTupleValue_::Type i[SIZE]; - | ^ -In member function 'seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; unsigned int m = 3; TPack = seqan::Tag]', - inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, - inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, - inlined from 'bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1376:22, - inlined from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:241:20: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:182:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] - 182 | outRef->i2.i[skipped++] = *in; - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 3 into destination object 'seqan::Tuple >::i' of size 3 - 141 | typename StoredTupleValue_::Type i[SIZE]; - | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void seqan::SEQAN_TEST_testIndexCreation() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In member function 'seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]', inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, @@ -92327,16 +92363,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:278:5: note: because 'seqan::Index >, seqan::IndexQGram > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::String >; TShapeSpec = seqan::UngappedShape<2>; TSpec = seqan::Tag]' 278 | Index(Index const &other): | ^~~~~ -In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', - inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, - inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Packed<> >; TSpec = Owner >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:105:22: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' is used uninitialized [-Wuninitialized] - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Packed<> >; TSpec = Owner >; TAlgSpec = Skew7]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~ [ 19%] Linking CXX executable ../../bin/test_index_qgram cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_qgram.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_qgram.dir/link.d CMakeFiles/test_index_qgram.dir/test_index_qgram.cpp.o -o ../../bin/test_index_qgram -lrt -lz -lbz2 @@ -92350,6 +92376,16 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 19%] Building CXX object tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/test_index_sa_bwtwalk.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/test_index_sa_bwtwalk.cpp.o -MF CMakeFiles/test_index_sa_bwtwalk.dir/test_index_sa_bwtwalk.cpp.o.d -o CMakeFiles/test_index_sa_bwtwalk.dir/test_index_sa_bwtwalk.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_sa_bwtwalk.cpp +In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', + inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, + inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Packed<> >; TSpec = Owner >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:105:22: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' is used uninitialized [-Wuninitialized] + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Packed<> >; TSpec = Owner >; TAlgSpec = Skew7]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_sa_bwtwalk.cpp:42: @@ -93177,6 +93213,13 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_sa_bwtwalk.cpp:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void seqan::SEQAN_TEST_testBWTWalk() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_shapes.cpp:45: @@ -93483,6 +93526,11 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 19%] Linking CXX executable ../../bin/test_index_sa_bwtwalk +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_sa_bwtwalk.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_sa_bwtwalk.dir/link.d CMakeFiles/test_index_sa_bwtwalk.dir/test_index_sa_bwtwalk.cpp.o -o ../../bin/test_index_sa_bwtwalk -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Built target test_index_sa_bwtwalk In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/cyclic_shape.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:68: In copy constructor 'seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]', @@ -93495,11 +93543,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_shapes.h:129:30: note: 'shapeB' declared here 129 | Shape shapeB(pattern); | ^~~~~~ -[ 19%] Linking CXX executable ../../bin/test_index_shapes -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_shapes.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_shapes.dir/link.d CMakeFiles/test_index_shapes.dir/test_index_shapes.cpp.o -o ../../bin/test_index_shapes -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Built target test_index_shapes make -f tests/index/CMakeFiles/test_index_drawing.dir/build.make tests/index/CMakeFiles/test_index_drawing.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_drawing.dir/DependInfo.cmake "--color=" @@ -93508,13 +93551,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 19%] Building CXX object tests/index/CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o -MF CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o.d -o CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_drawing.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_sa_bwtwalk.cpp:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void seqan::SEQAN_TEST_testBWTWalk() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ +[ 19%] Linking CXX executable ../../bin/test_index_shapes +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_shapes.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_shapes.dir/link.d CMakeFiles/test_index_shapes.dir/test_index_shapes.cpp.o -o ../../bin/test_index_shapes -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Built target test_index_shapes +make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Building CXX object tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o -MF CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o.d -o CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_fm_rank_dictionary.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -94098,19 +94147,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -[ 19%] Linking CXX executable ../../bin/test_index_sa_bwtwalk -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_sa_bwtwalk.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_sa_bwtwalk.dir/link.d CMakeFiles/test_index_sa_bwtwalk.dir/test_index_sa_bwtwalk.cpp.o -o ../../bin/test_index_sa_bwtwalk -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Built target test_index_sa_bwtwalk -make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Building CXX object tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o -MF CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o.d -o CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_fm_rank_dictionary.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -100767,6 +100803,22 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: +In member function 'seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]', + inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, + inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, + inlined from 'bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1376:22, + inlined from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:317:20, + inlined from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20, + inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, External > >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:470:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] + 470 | outRef->i2.i[skipped++] = 0; + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, External > >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 7 into destination object 'seqan::Tuple >::i' of size 7 + 141 | typename StoredTupleValue_::Type i[SIZE]; + | ^ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -103415,22 +103467,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: -In member function 'seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]', - inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, - inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, - inlined from 'bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1376:22, - inlined from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:317:20, - inlined from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20, - inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, External > >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:470:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] - 470 | outRef->i2.i[skipped++] = 0; - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, External > >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 7 into destination object 'seqan::Tuple >::i' of size 7 - 141 | typename StoredTupleValue_::Type i[SIZE]; - | ^ [ 19%] Linking CXX executable ../../bin/test_index_fm cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_fm.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_fm.dir/link.d CMakeFiles/test_index_fm.dir/test_index_fm.cpp.o -o ../../bin/test_index_fm -lrt -lz -lbz2 @@ -106208,19 +106244,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -[ 19%] Linking CXX executable ../../bin/test_index_bifm -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_bifm.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_bifm.dir/link.d CMakeFiles/test_index_bifm.dir/test_index_bifm.cpp.o -o ../../bin/test_index_bifm -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Built target test_index_bifm -make -f tests/index/CMakeFiles/test_index_stree_iterators.dir/build.make tests/index/CMakeFiles/test_index_stree_iterators.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_stree_iterators.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_stree_iterators.dir/build.make tests/index/CMakeFiles/test_index_stree_iterators.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Building CXX object tests/index/CMakeFiles/test_index_stree_iterators.dir/test_index_stree_iterators.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_stree_iterators.dir/test_index_stree_iterators.cpp.o -MF CMakeFiles/test_index_stree_iterators.dir/test_index_stree_iterators.cpp.o.d -o CMakeFiles/test_index_stree_iterators.dir/test_index_stree_iterators.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_stree_iterators.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: In member function 'seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]', inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, @@ -106235,6 +106258,176 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 7 into destination object 'seqan::Tuple >::i' of size 7 141 | typename StoredTupleValue_::Type i[SIZE]; | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86: +In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', + inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, + inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:67:22, + inlined from 'void seqan::_createSuffixArrayWrapper(TSA&, const TText&, const TAlgSpec&, False) [with TSA = String > >; TText = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:186:37, + inlined from 'void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String > >; TText = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:198:34, + inlined from 'bool seqan::indexCreate(Index >&, FibreSALF) [with TText = String, Packed<> >; TSpec = void; TConfig = FMIndexConfig]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_fm.h:445:22, + inlined from 'bool seqan::indexRequire(Index&, Tag) [with TText = String, Packed<> >; TSpec = FMIndex<>; TFibre = FibreSALF_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27, + inlined from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = String, Packed<> >; TOccSpec = void; TIndexSpec = FMIndexConfig]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_fm_stree.h:183:17, + inlined from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Packed<> >, seqan::FMIndex<> >; TSpec = seqan::Preorder]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42, + inlined from 'void TopDownIndexIteratorTest__GoDown::runTest() [with SEQAN_TParam = seqan::Index, seqan::Packed<> >, seqan::FMIndex<> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_vstree.cpp:105:33: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' may be used uninitialized [-Wmaybe-uninitialized] + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In member function 'void TopDownIndexIteratorTest__GoDown::runTest() [with SEQAN_TParam = seqan::Index, seqan::Packed<> >, seqan::FMIndex<> >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~ +In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', + inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, + inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:67:22: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' is used uninitialized [-Wuninitialized] + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~ +In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', + inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, + inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:67:22, + inlined from 'void seqan::_createSuffixArrayWrapper(TSA&, const TText&, const TAlgSpec&, False) [with TSA = String > >; TText = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:186:37, + inlined from 'void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String > >; TText = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:198:34, + inlined from 'bool seqan::indexCreate(Index >&, FibreSALF) [with TText = String, Packed<> >; TSpec = void; TConfig = FMIndexConfig]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_fm.h:445:22, + inlined from 'bool seqan::indexRequire(Index&, Tag) [with TText = String, Packed<> >; TSpec = FMIndex<>; TFibre = FibreSALF_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27, + inlined from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = String, Packed<> >; TOccSpec = void; TIndexSpec = FMIndexConfig]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_fm_stree.h:183:17, + inlined from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Packed<> >, seqan::FMIndex<> >; TSpec = seqan::Preorder]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42, + inlined from 'void TopDownIndexIteratorTest__GoDown::runTest() [with SEQAN_TParam = seqan::Index, seqan::Packed<> >, seqan::FMIndex<> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_vstree.cpp:105:33: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' may be used uninitialized [-Wmaybe-uninitialized] + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In member function 'void TopDownIndexIteratorTest__GoDown::runTest() [with SEQAN_TParam = seqan::Index, seqan::Packed<> >, seqan::FMIndex<> >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~ +In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', + inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, + inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:67:22: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' is used uninitialized [-Wuninitialized] + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~ +[ 19%] Linking CXX executable ../../bin/test_index_bifm +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_bifm.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_bifm.dir/link.d CMakeFiles/test_index_bifm.dir/test_index_bifm.cpp.o -o ../../bin/test_index_bifm -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Built target test_index_bifm +make -f tests/index/CMakeFiles/test_index_stree_iterators.dir/build.make tests/index/CMakeFiles/test_index_stree_iterators.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_stree_iterators.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_stree_iterators.dir/build.make tests/index/CMakeFiles/test_index_stree_iterators.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Building CXX object tests/index/CMakeFiles/test_index_stree_iterators.dir/test_index_stree_iterators.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_stree_iterators.dir/test_index_stree_iterators.cpp.o -MF CMakeFiles/test_index_stree_iterators.dir/test_index_stree_iterators.cpp.o.d -o CMakeFiles/test_index_stree_iterators.dir/test_index_stree_iterators.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_stree_iterators.cpp +[ 19%] Linking CXX executable ../../bin/test_index_vstree +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_vstree.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_vstree.dir/link.d CMakeFiles/test_index_vstree.dir/test_index_vstree.cpp.o -o ../../bin/test_index_vstree -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Built target test_index_vstree +make -f tests/index/CMakeFiles/test_index_view.dir/build.make tests/index/CMakeFiles/test_index_view.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_view.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_view.dir/build.make tests/index/CMakeFiles/test_index_view.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Building CXX object tests/index/CMakeFiles/test_index_view.dir/test_index_view.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_view.dir/test_index_view.cpp.o -MF CMakeFiles/test_index_view.dir/test_index_view.cpp.o.d -o CMakeFiles/test_index_view.dir/test_index_view.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:36: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:35: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_stree_iterators.cpp:42: @@ -106319,6 +106512,13 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -106330,6 +106530,66 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:40, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -106358,25 +106618,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86: -In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', - inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, - inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:67:22, - inlined from 'void seqan::_createSuffixArrayWrapper(TSA&, const TText&, const TAlgSpec&, False) [with TSA = String > >; TText = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:186:37, - inlined from 'void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String > >; TText = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:198:34, - inlined from 'bool seqan::indexCreate(Index >&, FibreSALF) [with TText = String, Packed<> >; TSpec = void; TConfig = FMIndexConfig]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_fm.h:445:22, - inlined from 'bool seqan::indexRequire(Index&, Tag) [with TText = String, Packed<> >; TSpec = FMIndex<>; TFibre = FibreSALF_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27, - inlined from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = String, Packed<> >; TOccSpec = void; TIndexSpec = FMIndexConfig]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_fm_stree.h:183:17, - inlined from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Packed<> >, seqan::FMIndex<> >; TSpec = seqan::Preorder]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42, - inlined from 'void TopDownIndexIteratorTest__GoDown::runTest() [with SEQAN_TParam = seqan::Index, seqan::Packed<> >, seqan::FMIndex<> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_vstree.cpp:105:33: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' may be used uninitialized [-Wmaybe-uninitialized] - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In member function 'void TopDownIndexIteratorTest__GoDown::runTest() [with SEQAN_TParam = seqan::Index, seqan::Packed<> >, seqan::FMIndex<> >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_stree_iterators.cpp:45: @@ -106499,16 +106740,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', - inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, - inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:67:22: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' is used uninitialized [-Wuninitialized] - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 1814 | struct _qgramComp : public std::binary_function { | ^~~~~~~~~~~~~~~ @@ -106700,6 +106931,249 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 666 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 714 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 782 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 851 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 885 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 933 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1814 | struct _qgramComp : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1833 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 46 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 85 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 98 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 112 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 127 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 110 | public std::binary_function < SkewDCStream, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 143 | public std::binary_function < SkewDCStream >, Pack> >, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 99 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 118 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 132 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 175 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 185 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | struct _skew7NCompMulti : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 97 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 141 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 59 | struct _mapInverse : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 164 | struct _mapInverseMulti : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Alloc<> > >; TIndexSpec = void; TSpec = Preorder; TDfsOrder = Preorder_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1880:20: required from 'bool seqan::goDown(Iter > >&) [with TIndex = Index, Alloc<> > > >; TSpec = Preorder]' @@ -106796,23 +107270,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' 222 | VertexEsa(VertexEsa const &other): | ^~~~~~~~~ -In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', - inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, - inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:67:22, - inlined from 'void seqan::_createSuffixArrayWrapper(TSA&, const TText&, const TAlgSpec&, False) [with TSA = String > >; TText = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:186:37, - inlined from 'void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String > >; TText = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:198:34, - inlined from 'bool seqan::indexCreate(Index >&, FibreSALF) [with TText = String, Packed<> >; TSpec = void; TConfig = FMIndexConfig]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_fm.h:445:22, - inlined from 'bool seqan::indexRequire(Index&, Tag) [with TText = String, Packed<> >; TSpec = FMIndex<>; TFibre = FibreSALF_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27, - inlined from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = String, Packed<> >; TOccSpec = void; TIndexSpec = FMIndexConfig]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_fm_stree.h:183:17, - inlined from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Packed<> >, seqan::FMIndex<> >; TSpec = seqan::Preorder]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42, - inlined from 'void TopDownIndexIteratorTest__GoDown::runTest() [with SEQAN_TParam = seqan::Index, seqan::Packed<> >, seqan::FMIndex<> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_vstree.cpp:105:33: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' may be used uninitialized [-Wmaybe-uninitialized] - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In member function 'void TopDownIndexIteratorTest__GoDown::runTest() [with SEQAN_TParam = seqan::Index, seqan::Packed<> >, seqan::FMIndex<> >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet, Alloc<> > >; TIndexSpec = void; TSpec = Preorder]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1840:21: required from 'bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Alloc<> > >; TIndexSpec = void; TSpec = Preorder; TDfsOrder = Preorder_]' 1840 | _historyPush(it); @@ -107339,16 +107803,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' 222 | VertexEsa(VertexEsa const &other): | ^~~~~~~~~ -In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', - inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, - inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:67:22: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' is used uninitialized [-Wuninitialized] - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index, Alloc<> > > >; TSpec = BottomUp]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index, Alloc<> > > >; TSpec = BottomUp]' 2236 | _clear(it); @@ -107415,6 +107869,24 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' 222 | VertexEsa(VertexEsa const &other): | ^~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:233: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h: In instantiation of 'typename seqan::View > > > > >::Type seqan::view(Factory > > > >&) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder; typename View > > > > >::Type = Factory >, void>, IndexSa<> >, VSTree > > >, void>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:62:37: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 62 | TTFactoryView factoryView = view(factory); + | ~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:237:23: warning: implicitly-declared 'constexpr seqan::Index >, void>, seqan::IndexSa<> >& seqan::Index >, void>, seqan::IndexSa<> >::operator=(const seqan::Index >, void>, seqan::IndexSa<> >&)' is deprecated [-Wdeprecated-copy] + 237 | host(factoryView) = view(_host(factory, typename IsView::Type())); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:142: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index >, void>, seqan::IndexSa<> >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::ContainerView >, void>; TSpec = void]' + 88 | Index(Index const & other) : + | ^~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index > > >; TSpec = TopDown<>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index > > >; TSpec = TopDown<>]' 2236 | _clear(it); @@ -107437,6 +107909,32 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' 222 | VertexEsa(VertexEsa const &other): | ^~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:311:18: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = String >; TIndexSpec = void; TSpec = TopDown<>]' + 311 | _historyClear(it); + | ~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 212 | goRoot(*this); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:64:11: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 64 | TIter it1(index); + | ^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] + 1731 | it._parentDesc = value(it); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' + 134 | VertexSA(VertexSA const & other) : + | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index >, IndexEsa<> >; TSpec = TopDown<>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index >, IndexEsa<> >; TSpec = TopDown<>]' 2236 | _clear(it); @@ -107462,6 +107960,182 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' 222 | VertexEsa(VertexEsa const &other): | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index >, void>, IndexSa<> >; TSpec = Preorder]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:311:18: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = ContainerView >, void>; TIndexSpec = void; TSpec = TopDown<>]' + 311 | _historyClear(it); + | ~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index >, void>, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 212 | goRoot(*this); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index >, void>, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:314:58: required from 'seqan::Iter > > > seqan::getObject(Factory > > > >&, TId) [with TIndex = Index >, void>, IndexSa<> >; TSpec = Preorder; TId = unsigned int]' + 314 | Iter > > > it(_host(factory, typename IsView::Type())); + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:63:30: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 63 | TIterView it2 = getObject(factoryView, 0u); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] + 1731 | it._parentDesc = value(it); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' + 134 | VertexSA(VertexSA const & other) : + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown<>]' + 2236 | _clear(it); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:312:10: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = String >; TIndexSpec = void; TSpec = TopDown<>]' + 312 | clear(it); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 212 | goRoot(*this); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:64:11: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 64 | TIter it1(index); + | ^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] + 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' + 134 | VertexSA(VertexSA const & other) : + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown >]' + 2236 | _clear(it); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2259:22: required from 'void seqan::goNextImpl(Iter > > >&, VSTreeIteratorTraits) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder; THideEmptyEdges = True]' + 2259 | clear(it); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1660:19: required from 'void seqan::goNext(Iter >&, TTraits) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown >; TTraits = Preorder]' + 1660 | goNextImpl(it, traits); + | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1655:15: required from 'void seqan::goNext(Iter >&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown >]' + 1655 | goNext(it, typename GetVSTreeIteratorTraits< Iter > >::Type()); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:73:15: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 73 | goNext(it1); + | ~~~~~~^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] + 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' + 134 | VertexSA(VertexSA const & other) : + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index >, void>, IndexSa<> >; TSpec = TopDown >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index >, void>, IndexSa<> >; TSpec = TopDown >]' + 2236 | _clear(it); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2259:22: required from 'void seqan::goNextImpl(Iter > > >&, VSTreeIteratorTraits) [with TIndex = Index >, void>, IndexSa<> >; TSpec = Preorder; THideEmptyEdges = True]' + 2259 | clear(it); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1660:19: required from 'void seqan::goNext(Iter >&, TTraits) [with TIndex = Index >, void>, IndexSa<> >; TSpec = TopDown >; TTraits = Preorder]' + 1660 | goNextImpl(it, traits); + | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1655:15: required from 'void seqan::goNext(Iter >&) [with TIndex = Index >, void>, IndexSa<> >; TSpec = TopDown >]' + 1655 | goNext(it, typename GetVSTreeIteratorTraits< Iter > >::Type()); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:74:15: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 74 | goNext(it2); + | ~~~~~~^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] + 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' + 134 | VertexSA(VertexSA const & other) : + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:72, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h: In instantiation of 'typename seqan::DisableIf > >::Type seqan::assign(TTarget&, TSource&) [with TTarget = Index >, IndexSa<> >; TSource = Index >, IndexSa<> >; typename DisableIf > >::Type = void]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:645:15: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Index >, IndexSa<> >; TValue2 = Index >, IndexSa<> >]' + 645 | assign(_dataValue(me), value_); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:594:19: required from 'void seqan::create(Holder >&) [with TValue = Index >, IndexSa<> >]' + 594 | create(me, _dataValue(me)); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:863:15: required from 'typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, IndexSa<> >; typename Reference > >::Type = Index >, IndexSa<> >&]' + 863 | create(me); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:192:17: required from 'typename seqan::Host > > >::Type& seqan::_host(Factory > >&, const False&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown >; typename Host > > >::Type = Index >, IndexSa<> >]' + 192 | return value(factory._index); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:237:35: required from 'typename seqan::View > > > > >::Type seqan::view(Factory > > > >&) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder; typename View > > > > >::Type = Factory >, void>, IndexSa<> >, VSTree > > >, void>]' + 237 | host(factoryView) = view(_host(factory, typename IsView::Type())); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:62:37: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 62 | TTFactoryView factoryView = view(factory); + | ~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h:110:12: warning: implicitly-declared 'seqan::Index >, seqan::IndexSa<> >& seqan::Index >, seqan::IndexSa<> >::operator=(const seqan::Index >, seqan::IndexSa<> >&)' is deprecated [-Wdeprecated-copy] + 110 | target = source; + | ~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index >, seqan::IndexSa<> >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::String >; TSpec = void]' + 88 | Index(Index const & other) : + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index >, void>, IndexSa<> >; TSpec = TopDown<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index >, void>, IndexSa<> >; TSpec = TopDown<>]' + 2236 | _clear(it); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:312:10: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = ContainerView >, void>; TIndexSpec = void; TSpec = TopDown<>]' + 312 | clear(it); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index >, void>, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 212 | goRoot(*this); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index >, void>, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:314:58: required from 'seqan::Iter > > > seqan::getObject(Factory > > > >&, TId) [with TIndex = Index >, void>, IndexSa<> >; TSpec = Preorder; TId = unsigned int]' + 314 | Iter > > > it(_host(factory, typename IsView::Type())); + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:63:30: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 63 | TIterView it2 = getObject(factoryView, 0u); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] + 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' + 134 | VertexSA(VertexSA const & other) : + | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index, Alloc<> > > >; TSpec = TopDown >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index, Alloc<> > > >; TSpec = TopDown >]' 2236 | _clear(it); @@ -107537,6 +108211,101 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' 222 | VertexEsa(VertexEsa const &other): | ^~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 392 | return _beginDefault(me, tag_); + | ~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 515 | return begin(cont, Rooted()); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' + 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' + 789 | write(it, source); + | ~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:946:71: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*, const char*, ...) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::ContainerView >, void>]' + 945 | std::cerr << file << ":" << line << " Assertion failed : " + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 946 | << expression1 << " == " << expression2 << " was: " << value1 + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:998:21: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::ContainerView >, void>]' + 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:68:9: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2048 | (_arg1), # _arg1, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2049 | (_arg2), # _arg2)) { \ + | ~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 351 | return TIterator(me, begin(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' + 116 | Iter(typename Parameter_::Type container_, TIterator it_) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' + 117 | : data_container(_toPointer(container_)), + | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: required from 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]' + 351 | return TIterator(me, begin(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 392 | return _beginDefault(me, tag_); + | ~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 515 | return begin(cont, Rooted()); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' + 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' + 789 | write(it, source); + | ~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:946:71: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*, const char*, ...) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::ContainerView >, void>]' + 945 | std::cerr << file << ":" << line << " Assertion failed : " + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 946 | << expression1 << " == " << expression2 << " was: " << value1 + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:998:21: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::ContainerView >, void>]' + 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:68:9: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' + 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2048 | (_arg1), # _arg1, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2049 | (_arg2), # _arg2)) { \ + | ~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 147 | compareTreeIterators(index, indexView); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index, Alloc<> > > >; TSpec = TopDown >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index, Alloc<> > > >; TSpec = TopDown >]' 2236 | _clear(it); @@ -108299,6 +109068,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +[ 20%] Linking CXX executable ../../bin/test_index_view +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_view.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_view.dir/link.d CMakeFiles/test_index_view.dir/test_index_view.cpp.o -o ../../bin/test_index_view -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 20%] Built target test_index_view +make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_finder.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 20%] Building CXX object tests/index/CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o -MF CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o.d -o CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_finder.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -110125,6 +110907,87 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_finder.cpp:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/bits/refwrap.h:41, + from /usr/include/c++/15/vector:70, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_finder.cpp:35: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' 332 | return processBuffer(*chain.first, *this); @@ -110231,6 +111094,32 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]' 332 | return processBuffer(*chain.first, *this); @@ -110284,859 +111173,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -[ 19%] Linking CXX executable ../../bin/test_index_vstree -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_vstree.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_vstree.dir/link.d CMakeFiles/test_index_vstree.dir/test_index_vstree.cpp.o -o ../../bin/test_index_vstree -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Built target test_index_vstree -make -f tests/index/CMakeFiles/test_index_view.dir/build.make tests/index/CMakeFiles/test_index_view.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_view.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_view.dir/build.make tests/index/CMakeFiles/test_index_view.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Building CXX object tests/index/CMakeFiles/test_index_view.dir/test_index_view.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_view.dir/test_index_view.cpp.o -MF CMakeFiles/test_index_view.dir/test_index_view.cpp.o.d -o CMakeFiles/test_index_view.dir/test_index_view.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:36: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:35: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:40, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 666 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 714 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 782 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 851 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 885 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 933 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1814 | struct _qgramComp : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1833 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 46 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 85 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 98 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 112 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 127 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 110 | public std::binary_function < SkewDCStream, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 143 | public std::binary_function < SkewDCStream >, Pack> >, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 99 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 118 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 132 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 175 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 185 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | struct _skew7NCompMulti : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 97 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 141 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 59 | struct _mapInverse : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 164 | struct _mapInverseMulti : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:233: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h: In instantiation of 'typename seqan::View > > > > >::Type seqan::view(Factory > > > >&) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder; typename View > > > > >::Type = Factory >, void>, IndexSa<> >, VSTree > > >, void>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:62:37: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 62 | TTFactoryView factoryView = view(factory); - | ~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:237:23: warning: implicitly-declared 'constexpr seqan::Index >, void>, seqan::IndexSa<> >& seqan::Index >, void>, seqan::IndexSa<> >::operator=(const seqan::Index >, void>, seqan::IndexSa<> >&)' is deprecated [-Wdeprecated-copy] - 237 | host(factoryView) = view(_host(factory, typename IsView::Type())); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:142: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index >, void>, seqan::IndexSa<> >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::ContainerView >, void>; TSpec = void]' - 88 | Index(Index const & other) : - | ^~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:311:18: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = String >; TIndexSpec = void; TSpec = TopDown<>]' - 311 | _historyClear(it); - | ~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 212 | goRoot(*this); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:64:11: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 64 | TIter it1(index); - | ^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] - 1731 | it._parentDesc = value(it); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' - 134 | VertexSA(VertexSA const & other) : - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index >, void>, IndexSa<> >; TSpec = Preorder]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:311:18: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = ContainerView >, void>; TIndexSpec = void; TSpec = TopDown<>]' - 311 | _historyClear(it); - | ~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index >, void>, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 212 | goRoot(*this); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index >, void>, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:314:58: required from 'seqan::Iter > > > seqan::getObject(Factory > > > >&, TId) [with TIndex = Index >, void>, IndexSa<> >; TSpec = Preorder; TId = unsigned int]' - 314 | Iter > > > it(_host(factory, typename IsView::Type())); - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:63:30: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 63 | TIterView it2 = getObject(factoryView, 0u); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] - 1731 | it._parentDesc = value(it); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' - 134 | VertexSA(VertexSA const & other) : - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown<>]' - 2236 | _clear(it); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:312:10: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = String >; TIndexSpec = void; TSpec = TopDown<>]' - 312 | clear(it); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 212 | goRoot(*this); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:64:11: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 64 | TIter it1(index); - | ^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] - 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' - 134 | VertexSA(VertexSA const & other) : - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown >]' - 2236 | _clear(it); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2259:22: required from 'void seqan::goNextImpl(Iter > > >&, VSTreeIteratorTraits) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder; THideEmptyEdges = True]' - 2259 | clear(it); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1660:19: required from 'void seqan::goNext(Iter >&, TTraits) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown >; TTraits = Preorder]' - 1660 | goNextImpl(it, traits); - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1655:15: required from 'void seqan::goNext(Iter >&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown >]' - 1655 | goNext(it, typename GetVSTreeIteratorTraits< Iter > >::Type()); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:73:15: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 73 | goNext(it1); - | ~~~~~~^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] - 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' - 134 | VertexSA(VertexSA const & other) : - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index >, void>, IndexSa<> >; TSpec = TopDown >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index >, void>, IndexSa<> >; TSpec = TopDown >]' - 2236 | _clear(it); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2259:22: required from 'void seqan::goNextImpl(Iter > > >&, VSTreeIteratorTraits) [with TIndex = Index >, void>, IndexSa<> >; TSpec = Preorder; THideEmptyEdges = True]' - 2259 | clear(it); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1660:19: required from 'void seqan::goNext(Iter >&, TTraits) [with TIndex = Index >, void>, IndexSa<> >; TSpec = TopDown >; TTraits = Preorder]' - 1660 | goNextImpl(it, traits); - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1655:15: required from 'void seqan::goNext(Iter >&) [with TIndex = Index >, void>, IndexSa<> >; TSpec = TopDown >]' - 1655 | goNext(it, typename GetVSTreeIteratorTraits< Iter > >::Type()); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:74:15: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 74 | goNext(it2); - | ~~~~~~^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] - 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' - 134 | VertexSA(VertexSA const & other) : - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:72, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h: In instantiation of 'typename seqan::DisableIf > >::Type seqan::assign(TTarget&, TSource&) [with TTarget = Index >, IndexSa<> >; TSource = Index >, IndexSa<> >; typename DisableIf > >::Type = void]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:645:15: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Index >, IndexSa<> >; TValue2 = Index >, IndexSa<> >]' - 645 | assign(_dataValue(me), value_); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:594:19: required from 'void seqan::create(Holder >&) [with TValue = Index >, IndexSa<> >]' - 594 | create(me, _dataValue(me)); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:863:15: required from 'typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, IndexSa<> >; typename Reference > >::Type = Index >, IndexSa<> >&]' - 863 | create(me); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:192:17: required from 'typename seqan::Host > > >::Type& seqan::_host(Factory > >&, const False&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown >; typename Host > > >::Type = Index >, IndexSa<> >]' - 192 | return value(factory._index); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:237:35: required from 'typename seqan::View > > > > >::Type seqan::view(Factory > > > >&) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder; typename View > > > > >::Type = Factory >, void>, IndexSa<> >, VSTree > > >, void>]' - 237 | host(factoryView) = view(_host(factory, typename IsView::Type())); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:62:37: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 62 | TTFactoryView factoryView = view(factory); - | ~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h:110:12: warning: implicitly-declared 'seqan::Index >, seqan::IndexSa<> >& seqan::Index >, seqan::IndexSa<> >::operator=(const seqan::Index >, seqan::IndexSa<> >&)' is deprecated [-Wdeprecated-copy] - 110 | target = source; - | ~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index >, seqan::IndexSa<> >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::String >; TSpec = void]' - 88 | Index(Index const & other) : - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index >, void>, IndexSa<> >; TSpec = TopDown<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index >, void>, IndexSa<> >; TSpec = TopDown<>]' - 2236 | _clear(it); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:312:10: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = ContainerView >, void>; TIndexSpec = void; TSpec = TopDown<>]' - 312 | clear(it); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index >, void>, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 212 | goRoot(*this); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index >, void>, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h:314:58: required from 'seqan::Iter > > > seqan::getObject(Factory > > > >&, TId) [with TIndex = Index >, void>, IndexSa<> >; TSpec = Preorder; TId = unsigned int]' - 314 | Iter > > > it(_host(factory, typename IsView::Type())); - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:63:30: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 63 | TIterView it2 = getObject(factoryView, 0u); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] - 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' - 134 | VertexSA(VertexSA const & other) : - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 392 | return _beginDefault(me, tag_); - | ~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 515 | return begin(cont, Rooted()); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' - 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' - 789 | write(it, source); - | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:946:71: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*, const char*, ...) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::ContainerView >, void>]' - 945 | std::cerr << file << ":" << line << " Assertion failed : " - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 946 | << expression1 << " == " << expression2 << " was: " << value1 - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:998:21: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::ContainerView >, void>]' - 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:68:9: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2048 | (_arg1), # _arg1, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2049 | (_arg2), # _arg2)) { \ - | ~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 351 | return TIterator(me, begin(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' - 116 | Iter(typename Parameter_::Type container_, TIterator it_) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' - 117 | : data_container(_toPointer(container_)), - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: required from 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]' - 351 | return TIterator(me, begin(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 392 | return _beginDefault(me, tag_); - | ~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 515 | return begin(cont, Rooted()); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' - 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' - 789 | write(it, source); - | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:946:71: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*, const char*, ...) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::ContainerView >, void>]' - 945 | std::cerr << file << ":" << line << " Assertion failed : " - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 946 | << expression1 << " == " << expression2 << " was: " << value1 - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:998:21: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::ContainerView >, void>]' - 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:68:9: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' - 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2048 | (_arg1), # _arg1, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2049 | (_arg2), # _arg2)) { \ - | ~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:147:25: required from 'void SEQAN_TEST_test_index_view_basic() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 147 | compareTreeIterators(index, indexView); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.cpp:44:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -[ 20%] Linking CXX executable ../../bin/test_index_view -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_view.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_view.dir/link.d CMakeFiles/test_index_view.dir/test_index_view.cpp.o -o ../../bin/test_index_view -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 20%] Built target test_index_view -make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_finder.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 20%] Building CXX object tests/index/CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o -MF CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o.d -o CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_finder.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_finder.cpp:37: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/bits/refwrap.h:41, - from /usr/include/c++/15/vector:70, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_finder.cpp:35: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 351 | struct insertBucket : public std::unary_function @@ -115693,6 +115729,42 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 7 into destination object 'seqan::Tuple >::i' of size 7 141 | typename StoredTupleValue_::Type i[SIZE]; | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: +In member function 'seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]', + inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, + inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, + inlined from 'bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1376:22, + inlined from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:317:20, + inlined from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20, + inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, External > >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:470:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] + 470 | outRef->i2.i[skipped++] = 0; + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, External > >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 7 into destination object 'seqan::Tuple >::i' of size 7 + 141 | typename StoredTupleValue_::Type i[SIZE]; + | ^ +In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', + inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, + inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:67:22: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' is used uninitialized [-Wuninitialized] + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~ +In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', + inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, + inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:67:22: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' is used uninitialized [-Wuninitialized] + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~ [ 20%] Linking CXX executable ../../bin/test_index_stree_iterators cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_stree_iterators.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_stree_iterators.dir/link.d CMakeFiles/test_index_stree_iterators.dir/test_index_stree_iterators.cpp.o -o ../../bin/test_index_stree_iterators -lrt -lz -lbz2 @@ -117205,42 +117277,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: -In member function 'seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]', - inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, - inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, - inlined from 'bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1376:22, - inlined from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:317:20, - inlined from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20, - inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, External > >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:470:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] - 470 | outRef->i2.i[skipped++] = 0; - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, External > >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 7 into destination object 'seqan::Tuple >::i' of size 7 - 141 | typename StoredTupleValue_::Type i[SIZE]; - | ^ -In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', - inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, - inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:67:22: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' is used uninitialized [-Wuninitialized] - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~ -In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', - inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, - inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:67:22: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' is used uninitialized [-Wuninitialized] - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~ [ 20%] Linking CXX executable ../../bin/test_index_finder cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_finder.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_finder.dir/link.d CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o -o ../../bin/test_index_finder -lrt -lz -lbz2 @@ -118355,6 +118391,45 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:68: +In member function 'constexpr const std::array<_Tp, _Nm>::value_type& std::array<_Tp, _Nm>::operator[](size_type) const [with _Tp = unsigned char; long unsigned int _Nm = 1]', + inlined from 'void seqan::_optimalSearchSchemeChildren(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, uint8_t, const TDir&, const TDistanceTag&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag; TDistanceTag = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_index_approx.h:395:63, + inlined from 'void seqan::_optimalSearchScheme(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, const TDir&, const TDistanceTag&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag; TDistanceTag = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_index_approx.h:540:37: +/usr/include/c++/15/array:221:24: warning: array subscript 18446744073709551615 is above array bounds of 'std::__array_traits::_Type' {aka 'const unsigned char [1]'} [-Warray-bounds=] + 221 | return _M_elems[__n]; + | ~~~~~~~~^ +/usr/include/c++/15/array: In function 'void seqan::_optimalSearchScheme(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, const TDir&, const TDistanceTag&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag; TDistanceTag = Tag]': +/usr/include/c++/15/array:117:55: note: while referencing 'std::array::_M_elems' + 117 | typename __array_traits<_Tp, _Nm>::_Type _M_elems; + | ^~~~~~~~ +In member function 'constexpr const std::array<_Tp, _Nm>::value_type& std::array<_Tp, _Nm>::operator[](size_type) const [with _Tp = unsigned char; long unsigned int _Nm = 1]', + inlined from 'void seqan::_optimalSearchSchemeChildren(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, uint8_t, const TDir&, const TDistanceTag&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag; TDistanceTag = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_index_approx.h:395:63, + inlined from 'void seqan::_optimalSearchScheme(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, const TDir&, const TDistanceTag&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag; TDistanceTag = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_index_approx.h:540:37: +/usr/include/c++/15/array:221:24: warning: array subscript 18446744073709551615 is above array bounds of 'std::__array_traits::_Type' {aka 'const unsigned char [1]'} [-Warray-bounds=] + 221 | return _M_elems[__n]; + | ~~~~~~~~^ +/usr/include/c++/15/array: In function 'void seqan::_optimalSearchScheme(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, const TDir&, const TDistanceTag&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag; TDistanceTag = Tag]': +/usr/include/c++/15/array:117:55: note: while referencing 'std::array::_M_elems' + 117 | typename __array_traits<_Tp, _Nm>::_Type _M_elems; + | ^~~~~~~~ +In member function 'constexpr const std::array<_Tp, _Nm>::value_type& std::array<_Tp, _Nm>::operator[](size_type) const [with _Tp = unsigned char; long unsigned int _Nm = 1]', + inlined from 'void seqan::_optimalSearchSchemeDeletion(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, const TDir&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_index_approx.h:322:57: +/usr/include/c++/15/array:221:24: warning: array subscript 18446744073709551615 is above array bounds of 'std::__array_traits::_Type' {aka 'const unsigned char [1]'} [-Warray-bounds=] + 221 | return _M_elems[__n]; + | ~~~~~~~~^ +/usr/include/c++/15/array: In function 'void seqan::_optimalSearchSchemeDeletion(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, const TDir&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag]': +/usr/include/c++/15/array:117:55: note: while referencing 'std::array::_M_elems' + 117 | typename __array_traits<_Tp, _Nm>::_Type _M_elems; + | ^~~~~~~~ +In member function 'constexpr const std::array<_Tp, _Nm>::value_type& std::array<_Tp, _Nm>::operator[](size_type) const [with _Tp = unsigned char; long unsigned int _Nm = 1]', + inlined from 'void seqan::_optimalSearchSchemeDeletion(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, const TDir&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_index_approx.h:322:57: +/usr/include/c++/15/array:221:24: warning: array subscript 18446744073709551615 is above array bounds of 'std::__array_traits::_Type' {aka 'const unsigned char [1]'} [-Warray-bounds=] + 221 | return _M_elems[__n]; + | ~~~~~~~~^ +/usr/include/c++/15/array: In function 'void seqan::_optimalSearchSchemeDeletion(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, const TDir&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag]': +/usr/include/c++/15/array:117:55: note: while referencing 'std::array::_M_elems' + 117 | typename __array_traits<_Tp, _Nm>::_Type _M_elems; + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: In member function 'seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]', inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, @@ -118382,27 +118457,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 21%] Building CXX object tests/index/CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o -MF CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o.d -o CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_repeats.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:68: -In member function 'constexpr const std::array<_Tp, _Nm>::value_type& std::array<_Tp, _Nm>::operator[](size_type) const [with _Tp = unsigned char; long unsigned int _Nm = 1]', - inlined from 'void seqan::_optimalSearchSchemeChildren(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, uint8_t, const TDir&, const TDistanceTag&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag; TDistanceTag = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_index_approx.h:395:63, - inlined from 'void seqan::_optimalSearchScheme(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, const TDir&, const TDistanceTag&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag; TDistanceTag = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_index_approx.h:540:37: -/usr/include/c++/15/array:221:24: warning: array subscript 18446744073709551615 is above array bounds of 'std::__array_traits::_Type' {aka 'const unsigned char [1]'} [-Warray-bounds=] - 221 | return _M_elems[__n]; - | ~~~~~~~~^ -/usr/include/c++/15/array: In function 'void seqan::_optimalSearchScheme(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, const TDir&, const TDistanceTag&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag; TDistanceTag = Tag]': -/usr/include/c++/15/array:117:55: note: while referencing 'std::array::_M_elems' - 117 | typename __array_traits<_Tp, _Nm>::_Type _M_elems; - | ^~~~~~~~ -In member function 'constexpr const std::array<_Tp, _Nm>::value_type& std::array<_Tp, _Nm>::operator[](size_type) const [with _Tp = unsigned char; long unsigned int _Nm = 1]', - inlined from 'void seqan::_optimalSearchSchemeChildren(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, uint8_t, const TDir&, const TDistanceTag&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag; TDistanceTag = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_index_approx.h:395:63, - inlined from 'void seqan::_optimalSearchScheme(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, const TDir&, const TDistanceTag&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag; TDistanceTag = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_index_approx.h:540:37: -/usr/include/c++/15/array:221:24: warning: array subscript 18446744073709551615 is above array bounds of 'std::__array_traits::_Type' {aka 'const unsigned char [1]'} [-Warray-bounds=] - 221 | return _M_elems[__n]; - | ~~~~~~~~^ -/usr/include/c++/15/array: In function 'void seqan::_optimalSearchScheme(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, const TDir&, const TDistanceTag&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag; TDistanceTag = Tag]': -/usr/include/c++/15/array:117:55: note: while referencing 'std::array::_M_elems' - 117 | typename __array_traits<_Tp, _Nm>::_Type _M_elems; - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -118557,15 +118611,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In member function 'constexpr const std::array<_Tp, _Nm>::value_type& std::array<_Tp, _Nm>::operator[](size_type) const [with _Tp = unsigned char; long unsigned int _Nm = 1]', - inlined from 'void seqan::_optimalSearchSchemeDeletion(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, const TDir&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_index_approx.h:322:57: -/usr/include/c++/15/array:221:24: warning: array subscript 18446744073709551615 is above array bounds of 'std::__array_traits::_Type' {aka 'const unsigned char [1]'} [-Warray-bounds=] - 221 | return _M_elems[__n]; - | ~~~~~~~~^ -/usr/include/c++/15/array: In function 'void seqan::_optimalSearchSchemeDeletion(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, const TDir&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag]': -/usr/include/c++/15/array:117:55: note: while referencing 'std::array::_M_elems' - 117 | typename __array_traits<_Tp, _Nm>::_Type _M_elems; - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -118582,15 +118627,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In member function 'constexpr const std::array<_Tp, _Nm>::value_type& std::array<_Tp, _Nm>::operator[](size_type) const [with _Tp = unsigned char; long unsigned int _Nm = 1]', - inlined from 'void seqan::_optimalSearchSchemeDeletion(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, const TDir&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_index_approx.h:322:57: -/usr/include/c++/15/array:221:24: warning: array subscript 18446744073709551615 is above array bounds of 'std::__array_traits::_Type' {aka 'const unsigned char [1]'} [-Warray-bounds=] - 221 | return _M_elems[__n]; - | ~~~~~~~~^ -/usr/include/c++/15/array: In function 'void seqan::_optimalSearchSchemeDeletion(TDelegate&, Iter >, VSTree > >, const TNeedle&, uint32_t, uint32_t, uint8_t, const OptimalSearch&, uint8_t, const TDir&) [with TDelegate = testOptimalSearch, seqan::Alloc<> >, seqan::FMIndex >, seqan::Preorder, 1, seqan::Tag >(seqan::Iter, seqan::Alloc<> >, seqan::BidirectionalIndex > > >, seqan::VSTree > >, const seqan::OptimalSearch<1>&, const seqan::OptimalSearch<1>&, unsigned int, const std::vector&, time_t, const seqan::Tag&)::, Alloc<> >&, uint8_t)>; TText = String, Alloc<> >; TIndex = FMIndex >; TIndexSpec = Preorder; TNeedle = String, Alloc<> >; long unsigned int nbrBlocks = 1; TDir = Tag]': -/usr/include/c++/15/array:117:55: note: while referencing 'std::array::_M_elems' - 117 | typename __array_traits<_Tp, _Nm>::_Type _M_elems; - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -119385,6 +119421,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 21%] Linking CXX executable ../../bin/test_find2_index_approx +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_find2_index_approx.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_find2_index_approx.dir/link.d CMakeFiles/test_find2_index_approx.dir/test_find2_index_approx.cpp.o -o ../../bin/test_find2_index_approx -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 21%] Built target test_find2_index_approx +make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 21%] Building CXX object tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o -MF CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o.d -o CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_basic_observable.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -119499,6 +119548,94 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:46, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_basic_observable.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_basic_observable.cpp:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_basic_observable.cpp:35: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -119643,120 +119780,204 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -[ 21%] Linking CXX executable ../../bin/test_find2_index_approx -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_find2_index_approx.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_find2_index_approx.dir/link.d CMakeFiles/test_find2_index_approx.dir/test_find2_index_approx.cpp.o -o ../../bin/test_find2_index_approx -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 21%] Built target test_find2_index_approx -make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 21%] Building CXX object tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o -MF CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o.d -o CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_basic_observable.cpp -[ 21%] Linking CXX executable ../../bin/test_journaled_set -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_journaled_set.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_journaled_set.dir/link.d CMakeFiles/test_journaled_set.dir/test_journaled_set.cpp.o -o ../../bin/test_journaled_set -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 21%] Built target test_journaled_set -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 21%] Building CXX object tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o -MF CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o.d -o CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:46, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_basic_observable.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_basic_observable.cpp:37: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_basic_observable.cpp:35: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_set.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_set.h:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:45: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +[ 21%] Linking CXX executable ../../bin/test_basic_observable +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_observable.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_observable.dir/link.d CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o -o ../../bin/test_basic_observable -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 21%] Built target test_basic_observable +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 21%] Building CXX object tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o -MF CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o.d -o CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree.cpp +[ 21%] Linking CXX executable ../../bin/test_journaled_set +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_journaled_set.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_journaled_set.dir/link.d CMakeFiles/test_journaled_set.dir/test_journaled_set.cpp.o -o ../../bin/test_journaled_set -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 21%] Built target test_journaled_set +make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 21%] Building CXX object tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o -MF CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o.d -o CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_delta_map.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree.cpp:36: @@ -119851,21 +120072,13 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_set.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree.cpp:38: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 325 | public std::unary_function, bool> | ^~~~~~~~~~~~~~ @@ -119900,39 +120113,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_set.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree.cpp:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -119979,137 +120159,93 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_set.h:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_delta_map.cpp:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_delta_map.cpp:37: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:45: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:61: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree/delta_map_entry.h: In instantiation of 'seqan::DeltaMapEntry::DeltaMapEntry(TDeltaPos, TDeltaRecord, const TCoverage&, seqan::DeltaEndType) [with TRefPos = long unsigned int; TStorePos = long unsigned int; TDeltaPos = long unsigned int; TDeltaRecord = seqan::Pair >; TCoverage = seqan::String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree.h:150:5: required from 'void SEQAN_TEST_test_journaled_string_tree_insert() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' @@ -120125,6 +120261,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_packed.h:163:14: note: because 'seqan::String >' has user-provided 'seqan::String >& seqan::String >::operator=(const seqan::String >&) [with TValue = bool; THostspec = seqan::Alloc<>]' 163 | String & operator =(String const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45: @@ -120282,113 +120425,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: note: synthesized method 'seqan::DeltaMapEntry::DeltaMapEntry(seqan::DeltaMapEntry&&)' first required here 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 21%] Linking CXX executable ../../bin/test_basic_observable -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_observable.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_observable.dir/link.d CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o -o ../../bin/test_basic_observable -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 21%] Built target test_basic_observable -make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 21%] Building CXX object tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o -MF CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o.d -o CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_delta_map.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_delta_map.cpp:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_delta_map.cpp:37: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -120915,6 +120951,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 21%] Linking CXX executable ../../bin/test_delta_map +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_delta_map.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_delta_map.dir/link.d CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o -o ../../bin/test_delta_map -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -120940,6 +120980,15 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 21%] Built target test_delta_map +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 21%] Building CXX object tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o -MF CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o.d -o CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree_find.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:77: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree/journaled_string_tree_traverser_node.h: In instantiation of 'TSize seqan::impl::expandNode(seqan::TraverserImpl >&, TTraversalNode*, TSize, TObserver&, const TProxySelector&) [with TJst = seqan::JournaledStringTree, seqan::Alloc<> > >; TSpec = void; TTraversalNode = seqan::JstTraversalNode, seqan::Alloc<> > > >; TSize = int; TObserver = std::tuple<>; TProxySelector = seqan::Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree/journaled_string_tree_traverser_util.h:869:36: required from 'TSize seqan::impl::moveWindow(seqan::TraverserImpl >&, TTraversalNode*, TSize, TObserver&, const TProxySelector&) [with TJst = seqan::JournaledStringTree, seqan::Alloc<> > >; TSpec = void; TTraversalNode = seqan::JstTraversalNode, seqan::Alloc<> > > >; TSize = int; TObserver = std::tuple<>; TProxySelector = seqan::Tag]' @@ -121187,19 +121236,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: note: synthesized method 'seqan::DeltaMapEntry::DeltaMapEntry(seqan::DeltaMapEntry&&)' first required here 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 21%] Linking CXX executable ../../bin/test_delta_map -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_delta_map.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_delta_map.dir/link.d CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o -o ../../bin/test_delta_map -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 21%] Built target test_delta_map -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 21%] Building CXX object tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o -MF CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o.d -o CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree_find.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree_find.cpp:39: @@ -121929,19 +121965,32 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 22%] Linking CXX executable ../../bin/test_map -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_map.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_map.dir/link.d CMakeFiles/test_map.dir/test_map.cpp.o -o ../../bin/test_map -lrt -lz -lbz2 +[ 21%] Linking CXX executable ../../bin/test_journaled_string_tree_find +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_journaled_string_tree_find.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_journaled_string_tree_find.dir/link.d CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o -o ../../bin/test_journaled_string_tree_find -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 22%] Built target test_map +[ 21%] Built target test_journaled_string_tree_find make -f tests/misc/CMakeFiles/test_misc.dir/build.make tests/misc/CMakeFiles/test_misc.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc/CMakeFiles/test_misc.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/misc/CMakeFiles/test_misc.dir/build.make tests/misc/CMakeFiles/test_misc.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 22%] Building CXX object tests/misc/CMakeFiles/test_misc.dir/test_misc.cpp.o +[ 21%] Building CXX object tests/misc/CMakeFiles/test_misc.dir/test_misc.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/misc/CMakeFiles/test_misc.dir/test_misc.cpp.o -MF CMakeFiles/test_misc.dir/test_misc.cpp.o.d -o CMakeFiles/test_misc.dir/test_misc.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp +[ 22%] Linking CXX executable ../../bin/test_map +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_map.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_map.dir/link.d CMakeFiles/test_map.dir/test_map.cpp.o -o ../../bin/test_map -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 22%] Built target test_map +make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier/CMakeFiles/test_modifier.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 22%] Building CXX object tests/modifier/CMakeFiles/test_modifier.dir/test_modifier.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/modifier/CMakeFiles/test_modifier.dir/test_modifier.cpp.o -MF CMakeFiles/test_modifier.dir/test_modifier.cpp.o.d -o CMakeFiles/test_modifier.dir/test_modifier.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier/test_modifier.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:49: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -122043,177 +122092,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TVertexDescriptor&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TVertexDescriptor = unsigned int; TValue = int; TCargo = double]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1532:18: required from 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = double]' - 1532 | findIntervals(result, g, pm, act_knot, query_begin, query_end); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1513:18: required from 'void seqan::findIntervals(String&, const IntervalTree&, TValue2, TValue2) [with TValue = int; TCargo = double; TValue2 = int]' - 1513 | findIntervals(result, tree.g, tree.pm, query_begin, query_end); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:660:18: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_QueryAtBoundary() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 660 | findIntervals(resultstmp, tmpT, 20, 30); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:108:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1562:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1562 | act_prop = property(pm, act_knot); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1575:23: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1575 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1598:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1598 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = int]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1502:18: required from 'void seqan::findIntervals(String&, const IntervalTree&, TValue2) [with TValue = int; TCargo = int; TValue2 = int]' - 1502 | findIntervals(result, it.g, it.pm, query); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:460:22: required from 'void seqan::IntervalTreeTest_IntervalTree() [with TValue = int]' - 460 | findIntervals(result, itree, query); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:669:39: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_IntervalTree__int() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 669 | IntervalTreeTest_IntervalTree(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:109:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1441:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1441 | act_prop = property(pm, act_knot); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1453:23: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1453 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1475:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1475 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::addInterval(TGraph&, TPropertyMap&, TInterval) [with TGraph = Graph > >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TInterval = IntervalAndCargo]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1363:16: required from 'void seqan::addInterval(IntervalTree&, TInterval) [with TValue = int; TCargo = int; TInterval = IntervalAndCargo]' - 1363 | addInterval(itree.g, itree.pm, interval); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:613:20: required from 'void seqan::IntervalTreeTest_AddInterval() [with TValue = int]' - 613 | addInterval(itree, intervals[4]); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:687:38: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_AddInterval__int() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 687 | IntervalTreeTest_AddInterval(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:112:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1286:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1286 | act_prop = property(pm, act_knot); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1299:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1299 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1329:31: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1329 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervalsExcludeTouching(String&, const Graph&, const TPropertyMap&, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = int]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1732:33: required from 'void seqan::findIntervalsExcludeTouching(String&, const IntervalTree&, TValue) [with TValue = int; TCargo = int]' - 1732 | findIntervalsExcludeTouching(result, tree.g, tree.pm, query); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:628:37: required from 'void seqan::IntervalTreeTest_AddInterval() [with TValue = int]' - 628 | findIntervalsExcludeTouching(result, itree, 100); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:687:38: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_AddInterval__int() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 687 | IntervalTreeTest_AddInterval(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:112:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1667:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1667 | act_prop = property(pm, act_knot); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1679:23: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1679 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1701:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1701 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TVertexDescriptor&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TVertexDescriptor = unsigned int; TValue = int; TCargo = int]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1532:18: required from 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = int]' - 1532 | findIntervals(result, g, pm, act_knot, query_begin, query_end); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1513:18: required from 'void seqan::findIntervals(String&, const IntervalTree&, TValue2, TValue2) [with TValue = int; TCargo = int; TValue2 = int]' - 1513 | findIntervals(result, tree.g, tree.pm, query_begin, query_end); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:285:22: required from 'void seqan::IntervalTreeTest_FindIntervalsIntervals() [with TValue = int; TConstructSpec = const Tag]' - 285 | findIntervals(result, itree, (TValue)10.0, (TValue)20.0); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:723:64: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_FindIntervalsIntervals__int_ComputeCenter() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 723 | IntervalTreeTest_FindIntervalsIntervals(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:117:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1562:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1562 | act_prop = property(pm, act_knot); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1575:23: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1575 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1598:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1598 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -[ 22%] Linking CXX executable ../../bin/test_journaled_string_tree_find -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_journaled_string_tree_find.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_journaled_string_tree_find.dir/link.d CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o -o ../../bin/test_journaled_string_tree_find -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 22%] Built target test_journaled_string_tree_find -make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier/CMakeFiles/test_modifier.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 22%] Building CXX object tests/modifier/CMakeFiles/test_modifier.dir/test_modifier.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/modifier/CMakeFiles/test_modifier.dir/test_modifier.cpp.o -MF CMakeFiles/test_modifier.dir/test_modifier.cpp.o.d -o CMakeFiles/test_modifier.dir/test_modifier.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier/test_modifier.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -122379,6 +122257,37 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TFunctor = LowerFunctor; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TVertexDescriptor&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TVertexDescriptor = unsigned int; TValue = int; TCargo = double]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1532:18: required from 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = double]' + 1532 | findIntervals(result, g, pm, act_knot, query_begin, query_end); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1513:18: required from 'void seqan::findIntervals(String&, const IntervalTree&, TValue2, TValue2) [with TValue = int; TCargo = double; TValue2 = int]' + 1513 | findIntervals(result, tree.g, tree.pm, query_begin, query_end); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:660:18: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_QueryAtBoundary() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 660 | findIntervals(resultstmp, tmpT, 20, 30); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:108:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1562:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1562 | act_prop = property(pm, act_knot); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1575:23: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1575 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1598:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1598 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier/test_modifier.cpp:42: /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier/test_modifier_string_padding.h: In instantiation of 'void SEQAN_TEST_test_modified_string_padding_defect_2190() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier/test_modifier.cpp:133:5: required from here @@ -122393,6 +122302,99 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_string.h:117:53: note: initializing argument 1 of 'seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 117 | ModifiedString(typename Parameter_::Type host) : | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = int]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1502:18: required from 'void seqan::findIntervals(String&, const IntervalTree&, TValue2) [with TValue = int; TCargo = int; TValue2 = int]' + 1502 | findIntervals(result, it.g, it.pm, query); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:460:22: required from 'void seqan::IntervalTreeTest_IntervalTree() [with TValue = int]' + 460 | findIntervals(result, itree, query); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:669:39: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_IntervalTree__int() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 669 | IntervalTreeTest_IntervalTree(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:109:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1441:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1441 | act_prop = property(pm, act_knot); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1453:23: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1453 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1475:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1475 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::addInterval(TGraph&, TPropertyMap&, TInterval) [with TGraph = Graph > >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TInterval = IntervalAndCargo]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1363:16: required from 'void seqan::addInterval(IntervalTree&, TInterval) [with TValue = int; TCargo = int; TInterval = IntervalAndCargo]' + 1363 | addInterval(itree.g, itree.pm, interval); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:613:20: required from 'void seqan::IntervalTreeTest_AddInterval() [with TValue = int]' + 613 | addInterval(itree, intervals[4]); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:687:38: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_AddInterval__int() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 687 | IntervalTreeTest_AddInterval(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:112:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1286:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1286 | act_prop = property(pm, act_knot); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1299:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1299 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1329:31: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1329 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervalsExcludeTouching(String&, const Graph&, const TPropertyMap&, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = int]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1732:33: required from 'void seqan::findIntervalsExcludeTouching(String&, const IntervalTree&, TValue) [with TValue = int; TCargo = int]' + 1732 | findIntervalsExcludeTouching(result, tree.g, tree.pm, query); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:628:37: required from 'void seqan::IntervalTreeTest_AddInterval() [with TValue = int]' + 628 | findIntervalsExcludeTouching(result, itree, 100); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:687:38: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_AddInterval__int() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 687 | IntervalTreeTest_AddInterval(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:112:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1667:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1667 | act_prop = property(pm, act_knot); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1679:23: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1679 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1701:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1701 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h: In instantiation of 'seqan::ModifiedIterator >::ModifiedIterator(const THost&, const TFunctor&) [with THost = char*; TFunctor = CaesarChiffre]': /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier/test_modifier_view.h:108:27: required from 'void SEQAN_TEST_test_modifier_view_iterator() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' 108 | TModifiedIterator it(begin(myString, Standard()), myFunctor); @@ -122484,6 +122486,40 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier/helpers.h:48:5: note: because 'CaesarChiffre' has user-provided 'CaesarChiffre::CaesarChiffre(const CaesarChiffre&) [with TArgChar = char; TResultChar = char]' 48 | CaesarChiffre(CaesarChiffre const &other) : _delta(other._delta) {} | ^~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TVertexDescriptor&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TVertexDescriptor = unsigned int; TValue = int; TCargo = int]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1532:18: required from 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = int]' + 1532 | findIntervals(result, g, pm, act_knot, query_begin, query_end); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1513:18: required from 'void seqan::findIntervals(String&, const IntervalTree&, TValue2, TValue2) [with TValue = int; TCargo = int; TValue2 = int]' + 1513 | findIntervals(result, tree.g, tree.pm, query_begin, query_end); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:285:22: required from 'void seqan::IntervalTreeTest_FindIntervalsIntervals() [with TValue = int; TConstructSpec = const Tag]' + 285 | findIntervals(result, itree, (TValue)10.0, (TValue)20.0); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc_interval_tree.h:723:64: required from 'void seqan::SEQAN_TEST_Interval_Tree__IntervalTreeTest_FindIntervalsIntervals__int_ComputeCenter() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 723 | IntervalTreeTest_FindIntervalsIntervals(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:117:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1562:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1562 | act_prop = property(pm, act_knot); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1575:23: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1575 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1598:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1598 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_string.h: In instantiation of 'seqan::ModifiedString::ModifiedString(THost_&&, typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type*) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&; THost = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment> >; TSpec = void; typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type = void; typename seqan::RemoveReference::Type = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment> >; typename seqan::RemoveReference::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier/test_modifier_string.h:120:30: required from 'void SEQAN_TEST_test_modifier_modified_string_construct() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' 120 | TOuterModifiedString modified2(frag); @@ -122830,6 +122866,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 22%] Building CXX object tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/test_modifier_cyclic_shape.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/test_modifier_cyclic_shape.cpp.o -MF CMakeFiles/test_modifier_cyclic_shape.dir/test_modifier_cyclic_shape.cpp.o.d -o CMakeFiles/test_modifier_cyclic_shape.dir/test_modifier_cyclic_shape.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier_cyclic_shape/test_modifier_cyclic_shape.cpp +[ 22%] Linking CXX executable ../../bin/test_modifier +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_modifier.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_modifier.dir/link.d CMakeFiles/test_modifier.dir/test_modifier.cpp.o -o ../../bin/test_modifier -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 22%] Built target test_modifier +make -f tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build.make tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build.make tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 22%] Building CXX object tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o -MF CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o.d -o CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units/test_multiple_translation_units.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -123355,32 +123404,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/cyclic_shape.h:288:5: note: because 'seqan::CyclicShape >, 0> >' has user-provided 'seqan::CyclicShape >, RightOffset> >::CyclicShape(const seqan::CyclicShape >, RightOffset> >&) [with unsigned int LeftOffset = 1; unsigned int RightOffset = 0; int P00 = 1; int P01 = 0; int P02 = 0; int P03 = 0; int P04 = 0; int P05 = 0; int P06 = 0; int P07 = 0; int P08 = 0; int P09 = 0; int P10 = 0; int P11 = 0; int P12 = 0; int P13 = 0; int P14 = 0; int P15 = 0; int P16 = 0; int P17 = 0; int P18 = 0; int P19 = 0]' 288 | CyclicShape(CyclicShape const &) | ^~~~~~~~~~~ -[ 22%] Linking CXX executable ../../bin/test_modifier -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_modifier.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_modifier.dir/link.d CMakeFiles/test_modifier.dir/test_modifier.cpp.o -o ../../bin/test_modifier -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 22%] Built target test_modifier -make -f tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build.make tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build.make tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 22%] Building CXX object tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o -MF CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o.d -o CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units/test_multiple_translation_units.cpp -[ 22%] Linking CXX executable ../../bin/test_modifier_cyclic_shape -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_modifier_cyclic_shape.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_modifier_cyclic_shape.dir/link.d CMakeFiles/test_modifier_cyclic_shape.dir/test_modifier_cyclic_shape.cpp.o -o ../../bin/test_modifier_cyclic_shape -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 22%] Built target test_modifier_cyclic_shape -make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel/CMakeFiles/test_parallel.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 22%] Building CXX object tests/parallel/CMakeFiles/test_parallel.dir/test_parallel.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/parallel/CMakeFiles/test_parallel.dir/test_parallel.cpp.o -MF CMakeFiles/test_parallel.dir/test_parallel.cpp.o.d -o CMakeFiles/test_parallel.dir/test_parallel.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel/test_parallel.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units/test_multiple_translation_units.cpp:35: @@ -123821,101 +123844,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel/test_parallel.cpp:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel/test_parallel.cpp:37: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -123983,6 +123911,19 @@ 333 | AFScore(unsigned k, unsigned m, bool verbose_ = false) : | ^ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:333:17: note: remove the '< >' +[ 22%] Linking CXX executable ../../bin/test_modifier_cyclic_shape +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_modifier_cyclic_shape.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_modifier_cyclic_shape.dir/link.d CMakeFiles/test_modifier_cyclic_shape.dir/test_modifier_cyclic_shape.cpp.o -o ../../bin/test_modifier_cyclic_shape -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 22%] Built target test_modifier_cyclic_shape +make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel/CMakeFiles/test_parallel.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 22%] Building CXX object tests/parallel/CMakeFiles/test_parallel.dir/test_parallel.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/parallel/CMakeFiles/test_parallel.dir/test_parallel.cpp.o -MF CMakeFiles/test_parallel.dir/test_parallel.cpp.o.d -o CMakeFiles/test_parallel.dir/test_parallel.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel/test_parallel.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -124060,21 +124001,103 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel/test_parallel.cpp:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel/test_parallel.cpp:37: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ [ 22%] Building CXX object tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o -MF CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o.d -o CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units/test_multiple_translation_units_2.cpp -[ 22%] Linking CXX executable ../../bin/test_parallel -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_parallel.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_parallel.dir/link.d CMakeFiles/test_parallel.dir/test_parallel.cpp.o -o ../../bin/test_parallel -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 22%] Built target test_parallel -make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm/CMakeFiles/test_parse_lm.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 22%] Building CXX object tests/parse_lm/CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/parse_lm/CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o -MF CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o.d -o CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm/test_parse_lm.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units/test_multiple_translation_units_2.cpp:37: @@ -124572,77 +124595,177 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm/test_parse_lm.cpp:36: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm/test_parse_lm.cpp:35: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free.h:54, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units/test_multiple_translation_units_2.cpp:42: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:159:20: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 159 | AFScore(unsigned k, unsigned m, bool verbose_ = false) : + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:159:20: note: remove the '< >' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:333:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 333 | AFScore(unsigned k, unsigned m, bool verbose_ = false) : + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:333:17: note: remove the '< >' +[ 22%] Linking CXX executable ../../bin/test_parallel +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_parallel.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_parallel.dir/link.d CMakeFiles/test_parallel.dir/test_parallel.cpp.o -o ../../bin/test_parallel -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 22%] Built target test_parallel +make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm/CMakeFiles/test_parse_lm.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 22%] Building CXX object tests/parse_lm/CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/parse_lm/CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o -MF CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o.d -o CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm/test_parse_lm.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm/test_parse_lm.cpp:36: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm/test_parse_lm.cpp:35: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -124666,16 +124789,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free.h:54, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units/test_multiple_translation_units_2.cpp:42: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:159:20: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 159 | AFScore(unsigned k, unsigned m, bool verbose_ = false) : - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:159:20: note: remove the '< >' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:333:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 333 | AFScore(unsigned k, unsigned m, bool verbose_ = false) : - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:333:17: note: remove the '< >' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -124717,32 +124830,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -124787,57 +124874,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45: @@ -124917,6 +124953,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +[ 22%] Linking CXX executable ../../bin/test_multiple_translation_units +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_multiple_translation_units.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -124928,8 +124966,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 22%] Linking CXX executable ../../bin/test_multiple_translation_units -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_multiple_translation_units.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_multiple_translation_units.dir/link.d CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o -o ../../bin/test_multiple_translation_units -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 22%] Built target test_multiple_translation_units @@ -124941,19 +124977,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 22%] Building CXX object tests/pipe/CMakeFiles/test_pipe.dir/test_pipe.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/pipe/CMakeFiles/test_pipe.dir/test_pipe.cpp.o -MF CMakeFiles/test_pipe.dir/test_pipe.cpp.o.d -o CMakeFiles/test_pipe.dir/test_pipe.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/pipe/test_pipe.cpp -[ 23%] Linking CXX executable ../../bin/test_parse_lm -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_parse_lm.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_parse_lm.dir/link.d CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o -o ../../bin/test_parse_lm -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 23%] Built target test_parse_lm -make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/platform /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform/CMakeFiles/test_platform.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 23%] Building CXX object tests/platform/CMakeFiles/test_platform.dir/test_platform.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/platform/CMakeFiles/test_platform.dir/test_platform.cpp.o -MF CMakeFiles/test_platform.dir/test_platform.cpp.o.d -o CMakeFiles/test_platform.dir/test_platform.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/platform/test_platform.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -125104,19 +125127,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 23%] Linking CXX executable ../../bin/test_platform -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_platform.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_platform.dir/link.d CMakeFiles/test_platform.dir/test_platform.cpp.o -o ../../bin/test_platform -lrt -lz -lbz2 +[ 23%] Linking CXX executable ../../bin/test_parse_lm +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_parse_lm.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_parse_lm.dir/link.d CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o -o ../../bin/test_parse_lm -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 23%] Built target test_platform -make -f tests/random/CMakeFiles/test_random.dir/build.make tests/random/CMakeFiles/test_random.dir/depend +[ 23%] Built target test_parse_lm +make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/random /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random/CMakeFiles/test_random.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/platform /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform/CMakeFiles/test_platform.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/random/CMakeFiles/test_random.dir/build.make tests/random/CMakeFiles/test_random.dir/build +make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 23%] Building CXX object tests/random/CMakeFiles/test_random.dir/test_random.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/random/CMakeFiles/test_random.dir/test_random.cpp.o -MF CMakeFiles/test_random.dir/test_random.cpp.o.d -o CMakeFiles/test_random.dir/test_random.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/random/test_random.cpp +[ 23%] Building CXX object tests/platform/CMakeFiles/test_platform.dir/test_platform.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/platform/CMakeFiles/test_platform.dir/test_platform.cpp.o -MF CMakeFiles/test_platform.dir/test_platform.cpp.o.d -o CMakeFiles/test_platform.dir/test_platform.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/platform/test_platform.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46, @@ -125381,6 +125404,19 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 23%] Linking CXX executable ../../bin/test_platform +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_platform.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_platform.dir/link.d CMakeFiles/test_platform.dir/test_platform.cpp.o -o ../../bin/test_platform -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 23%] Built target test_platform +make -f tests/random/CMakeFiles/test_random.dir/build.make tests/random/CMakeFiles/test_random.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/random /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random/CMakeFiles/test_random.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/random/CMakeFiles/test_random.dir/build.make tests/random/CMakeFiles/test_random.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 23%] Building CXX object tests/random/CMakeFiles/test_random.dir/test_random.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/random/CMakeFiles/test_random.dir/test_random.cpp.o -MF CMakeFiles/test_random.dir/test_random.cpp.o.d -o CMakeFiles/test_random.dir/test_random.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/random/test_random.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -125489,6 +125525,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 23%] Building CXX object tests/realign/CMakeFiles/test_realign.dir/test_realign.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/realign/CMakeFiles/test_realign.dir/test_realign.cpp.o -MF CMakeFiles/test_realign.dir/test_realign.cpp.o.d -o CMakeFiles/test_realign.dir/test_realign.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/realign/test_realign.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: +In member function 'seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Source<> >; unsigned int m = 3; TPack = seqan::Tag]', + inlined from 'void comparePipeStream(TPipe&, const TStrings&) [with TPipe = seqan::Pipe, seqan::Alloc<> >, seqan::Source<> >, seqan::Sampler<3> >; TStrings = seqan::StringSet > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/pipe/test_pipe.cpp:330:9: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:203:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] + 203 | outRef->i2.i[skipped++] = 0; + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:61: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'void comparePipeStream(TPipe&, const TStrings&) [with TPipe = seqan::Pipe, seqan::Alloc<> >, seqan::Source<> >, seqan::Sampler<3> >; TStrings = seqan::StringSet > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 3 into destination object 'seqan::Tuple, 3, seqan::Tag >::i' of size 3 + 141 | typename StoredTupleValue_::Type i[SIZE]; + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign.h:45, @@ -125623,19 +125672,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: -In member function 'seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Source<> >; unsigned int m = 3; TPack = seqan::Tag]', - inlined from 'void comparePipeStream(TPipe&, const TStrings&) [with TPipe = seqan::Pipe, seqan::Alloc<> >, seqan::Source<> >, seqan::Sampler<3> >; TStrings = seqan::StringSet > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/pipe/test_pipe.cpp:330:9: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:203:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] - 203 | outRef->i2.i[skipped++] = 0; - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:61: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'void comparePipeStream(TPipe&, const TStrings&) [with TPipe = seqan::Pipe, seqan::Alloc<> >, seqan::Source<> >, seqan::Sampler<3> >; TStrings = seqan::StringSet > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 3 into destination object 'seqan::Tuple, 3, seqan::Tag >::i' of size 3 - 141 | typename StoredTupleValue_::Type i[SIZE]; - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -125996,6 +126032,14 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 23%] Linking CXX executable ../../bin/test_pipe +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_pipe.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_pipe.dir/link.d CMakeFiles/test_pipe.dir/test_pipe.cpp.o -o ../../bin/test_pipe -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 23%] Built target test_pipe +make -f tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build.make tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/reduced_aminoacid /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45: @@ -126020,10 +126064,15 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +make -f tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build.make tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 23%] Building CXX object tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o -MF CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o.d -o CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/reduced_aminoacid/test_reduced_aminoacid.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' @@ -126728,19 +126777,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -[ 23%] Linking CXX executable ../../bin/test_pipe -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_pipe.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_pipe.dir/link.d CMakeFiles/test_pipe.dir/test_pipe.cpp.o -o ../../bin/test_pipe -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 23%] Built target test_pipe -make -f tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build.make tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/reduced_aminoacid /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build.make tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 23%] Building CXX object tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o -MF CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o.d -o CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/reduced_aminoacid/test_reduced_aminoacid.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/reduced_aminoacid/test_reduced_aminoacid.h:42, @@ -129183,6 +129219,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_roi_io_isOpen_fileIn() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/rna_io/ebpseq_read_write.h: In lambda function: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_exception.h:158:29: warning: 'pairPos' may be used uninitialized [-Wmaybe-uninitialized] 158 | #define SEQAN_THROW(E) throw E @@ -129196,8 +129234,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/rna_io/ebpseq_read_write.h:282:22: note: 'pairPos' declared here 282 | unsigned pairPos; | ^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_roi_io_isOpen_fileIn() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] [ 23%] Linking CXX executable ../../bin/test_roi_io cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_roi_io.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_roi_io.dir/link.d CMakeFiles/test_roi_io.dir/test_roi_io.cpp.o -o ../../bin/test_roi_io -lrt -lz -lbz2 @@ -129297,8 +129333,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 24%] Linking CXX executable ../../bin/test_rna_io -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_rna_io.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -129306,12 +129340,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_rna_io.dir/link.d CMakeFiles/test_rna_io.dir/test_rna_io.cpp.o -o ../../bin/test_rna_io -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 24%] Built target test_rna_io -make -f tests/seeds/CMakeFiles/test_seeds_combination.dir/build.make tests/seeds/CMakeFiles/test_seeds_combination.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_combination.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -129322,9 +129350,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_combination.dir/build.make tests/seeds/CMakeFiles/test_seeds_combination.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 63 | struct LessPairI1_ : public std::unary_function, bool> @@ -129332,8 +129357,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 24%] Building CXX object tests/seeds/CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o -MF CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o.d -o CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_combination.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -129347,6 +129370,26 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 24%] Linking CXX executable ../../bin/test_rna_io +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_rna_io.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_rna_io.dir/link.d CMakeFiles/test_rna_io.dir/test_rna_io.cpp.o -o ../../bin/test_rna_io -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 24%] Built target test_rna_io +make -f tests/seeds/CMakeFiles/test_seeds_combination.dir/build.make tests/seeds/CMakeFiles/test_seeds_combination.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_combination.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/seeds/CMakeFiles/test_seeds_combination.dir/build.make tests/seeds/CMakeFiles/test_seeds_combination.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 24%] Building CXX object tests/seeds/CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o -MF CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o.d -o CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_combination.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/score/test_score.cpp:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -129442,6 +129485,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, @@ -129502,13 +129558,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/score/test_score.cpp:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -129773,19 +129822,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, @@ -129800,13 +129836,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 24%] Linking CXX executable ../../bin/test_seeds_combination -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_combination.dir/link.txt --verbose=1 [ 24%] Linking CXX executable ../../bin/test_score cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_score.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_combination.dir/link.d CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o -o ../../bin/test_seeds_combination -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_score.dir/link.d CMakeFiles/test_score.dir/test_score.cpp.o -o ../../bin/test_score -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 24%] Built target test_seeds_combination +[ 24%] Built target test_score make -f tests/seeds/CMakeFiles/test_seeds_extension.dir/build.make tests/seeds/CMakeFiles/test_seeds_extension.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_extension.dir/DependInfo.cmake "--color=" @@ -129815,9 +129849,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 24%] Building CXX object tests/seeds/CMakeFiles/test_seeds_extension.dir/test_seeds_extension.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_extension.dir/test_seeds_extension.cpp.o -MF CMakeFiles/test_seeds_extension.dir/test_seeds_extension.cpp.o.d -o CMakeFiles/test_seeds_extension.dir/test_seeds_extension.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_extension.cpp -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_score.dir/link.d CMakeFiles/test_score.dir/test_score.cpp.o -o ../../bin/test_score -lrt -lz -lbz2 +[ 24%] Linking CXX executable ../../bin/test_seeds_combination +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_combination.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_combination.dir/link.d CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o -o ../../bin/test_seeds_combination -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 24%] Built target test_score +[ 24%] Built target test_seeds_combination make -f tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build.make tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/DependInfo.cmake "--color=" @@ -129931,161 +129967,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_global_chaining.cpp:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_global_chaining.cpp:37: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_global_chaining.cpp:40: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public std::unary_function | ^~~~~~~~~~~~~~ @@ -130227,12 +130108,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -130240,9 +130115,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 85 | public std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ @@ -130299,13 +130171,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function @@ -130395,6 +130260,198 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_global_chaining.cpp:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_global_chaining.cpp:37: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_global_chaining.cpp:40: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -130520,10 +130577,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 110 | public std::binary_function < SkewDCStream, @@ -130531,9 +130584,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 143 | public std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ @@ -130629,17 +130679,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -130647,9 +130686,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] @@ -130677,6 +130713,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 25%] Building CXX object tests/seeds/CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o -MF CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o.d -o CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_base.cpp +[ 25%] Linking CXX executable ../../bin/test_seeds_extension +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_extension.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_extension.dir/link.d CMakeFiles/test_seeds_extension.dir/test_seeds_extension.cpp.o -o ../../bin/test_seeds_extension -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 25%] Built target test_seeds_extension +make -f tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 25%] Building CXX object tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/test_seeds_seed_chained.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/test_seeds_seed_chained.cpp.o -MF CMakeFiles/test_seeds_seed_chained.dir/test_seeds_seed_chained.cpp.o.d -o CMakeFiles/test_seeds_seed_chained.dir/test_seeds_seed_chained.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_chained.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -130832,19 +130881,161 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 25%] Linking CXX executable ../../bin/test_seeds_extension -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_extension.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_extension.dir/link.d CMakeFiles/test_seeds_extension.dir/test_seeds_extension.cpp.o -o ../../bin/test_seeds_extension -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 25%] Built target test_seeds_extension -make -f tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 25%] Building CXX object tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/test_seeds_seed_chained.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/test_seeds_seed_chained.cpp.o -MF CMakeFiles/test_seeds_seed_chained.dir/test_seeds_seed_chained.cpp.o.d -o CMakeFiles/test_seeds_seed_chained.dir/test_seeds_seed_chained.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_chained.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_chained.cpp:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_chained.cpp:37: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_chained.cpp:40: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -131088,195 +131279,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_chained.cpp:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_chained.cpp:37: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_chained.cpp:40: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -[ 25%] Linking CXX executable ../../bin/test_seeds_seed_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_seed_base.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_seed_base.dir/link.d CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o -o ../../bin/test_seeds_seed_base -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 25%] Built target test_seeds_seed_base -make -f tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 25%] Building CXX object tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/test_seeds_seed_diagonal.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/test_seeds_seed_diagonal.cpp.o -MF CMakeFiles/test_seeds_seed_diagonal.dir/test_seeds_seed_diagonal.cpp.o.d -o CMakeFiles/test_seeds_seed_diagonal.dir/test_seeds_seed_diagonal.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_diagonal.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -131293,6 +131295,13 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -131506,6 +131515,20 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public std::unary_function { @@ -131541,6 +131564,32 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 25%] Linking CXX executable ../../bin/test_seeds_seed_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_seed_base.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_seed_base.dir/link.d CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o -o ../../bin/test_seeds_seed_base -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 25%] Built target test_seeds_seed_base +make -f tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 25%] Building CXX object tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/test_seeds_seed_diagonal.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/test_seeds_seed_diagonal.cpp.o -MF CMakeFiles/test_seeds_seed_diagonal.dir/test_seeds_seed_diagonal.cpp.o.d -o CMakeFiles/test_seeds_seed_diagonal.dir/test_seeds_seed_diagonal.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_diagonal.cpp +[ 25%] Linking CXX executable ../../bin/test_seeds_seed_chained +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_seed_chained.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_seed_chained.dir/link.d CMakeFiles/test_seeds_seed_chained.dir/test_seeds_seed_chained.cpp.o -o ../../bin/test_seeds_seed_chained -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 25%] Built target test_seeds_seed_chained +make -f tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 25%] Building CXX object tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/test_seeds_seed_set_base.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/test_seeds_seed_set_base.cpp.o -MF CMakeFiles/test_seeds_seed_set_base.dir/test_seeds_seed_set_base.cpp.o.d -o CMakeFiles/test_seeds_seed_set_base.dir/test_seeds_seed_set_base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -131696,19 +131745,161 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 25%] Linking CXX executable ../../bin/test_seeds_seed_chained -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_seed_chained.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_seed_chained.dir/link.d CMakeFiles/test_seeds_seed_chained.dir/test_seeds_seed_chained.cpp.o -o ../../bin/test_seeds_seed_chained -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 25%] Built target test_seeds_seed_chained -make -f tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 25%] Building CXX object tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/test_seeds_seed_set_base.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/test_seeds_seed_set_base.cpp.o -MF CMakeFiles/test_seeds_seed_set_base.dir/test_seeds_seed_set_base.cpp.o.d -o CMakeFiles/test_seeds_seed_set_base.dir/test_seeds_seed_set_base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_base.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_base.cpp:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_base.cpp:37: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_base.cpp:40: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -131959,188 +132150,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -[ 25%] Linking CXX executable ../../bin/test_seeds_seed_diagonal -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_seed_diagonal.dir/link.txt --verbose=1 -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_base.cpp:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_base.cpp:37: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_seed_diagonal.dir/link.d CMakeFiles/test_seeds_seed_diagonal.dir/test_seeds_seed_diagonal.cpp.o -o ../../bin/test_seeds_seed_diagonal -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 25%] Built target test_seeds_seed_diagonal -make -f tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 25%] Building CXX object tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/test_seeds_seed_set_unordered.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/test_seeds_seed_set_unordered.cpp.o -MF CMakeFiles/test_seeds_seed_set_unordered.dir/test_seeds_seed_set_unordered.cpp.o.d -o CMakeFiles/test_seeds_seed_set_unordered.dir/test_seeds_seed_set_unordered.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_unordered.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_base.cpp:40: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -132183,6 +132192,20 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -132405,6 +132428,19 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 25%] Linking CXX executable ../../bin/test_seeds_seed_diagonal +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_seed_diagonal.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_seed_diagonal.dir/link.d CMakeFiles/test_seeds_seed_diagonal.dir/test_seeds_seed_diagonal.cpp.o -o ../../bin/test_seeds_seed_diagonal -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 25%] Built target test_seeds_seed_diagonal +make -f tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 25%] Building CXX object tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/test_seeds_seed_set_unordered.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/test_seeds_seed_set_unordered.cpp.o -MF CMakeFiles/test_seeds_seed_set_unordered.dir/test_seeds_seed_set_unordered.cpp.o.d -o CMakeFiles/test_seeds_seed_set_unordered.dir/test_seeds_seed_set_unordered.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_unordered.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -132837,6 +132873,8 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 25%] Building CXX object tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/test_align_banded_chain_impl.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/test_align_banded_chain_impl.cpp.o -MF CMakeFiles/test_seeds_align_banded_chain_impl.dir/test_align_banded_chain_impl.cpp.o.d -o CMakeFiles/test_seeds_align_banded_chain_impl.dir/test_align_banded_chain_impl.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_align_banded_chain_impl.cpp +[ 25%] Linking CXX executable ../../bin/test_seeds_seed_set_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_seed_set_base.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -132928,6 +132966,9 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_seed_set_base.dir/link.d CMakeFiles/test_seeds_seed_set_base.dir/test_seeds_seed_set_base.cpp.o -o ../../bin/test_seeds_seed_set_base -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 25%] Built target test_seeds_seed_set_base In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, @@ -132988,6 +133029,14 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +make -f tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build.make tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build.make tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 25%] Building CXX object tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o -MF CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o.d -o CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_banded_chain_alignment_interface.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -133231,8 +133280,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 25%] Linking CXX executable ../../bin/test_seeds_seed_set_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_seed_set_base.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -133240,17 +133287,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_seed_set_base.dir/link.d CMakeFiles/test_seeds_seed_set_base.dir/test_seeds_seed_set_base.cpp.o -o ../../bin/test_seeds_seed_set_base -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 25%] Built target test_seeds_seed_set_base -make -f tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build.make tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build.make tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 25%] Building CXX object tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o -MF CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o.d -o CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_banded_chain_alignment_interface.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] @@ -133265,6 +133301,153 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_banded_chain_alignment_interface.cpp:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/bits/refwrap.h:41, + from /usr/include/c++/15/vector:70, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_banded_chain_alignment_interface.cpp:37: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_banded_chain_alignment_interface.cpp:43: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_align_banded_chain_impl.cpp:40: @@ -133367,83 +133550,253 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::SuffixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::SuffixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_banded_chain_alignment_interface.cpp:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/bits/refwrap.h:41, - from /usr/include/c++/15/vector:70, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_banded_chain_alignment_interface.cpp:37: +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 666 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 714 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 782 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 851 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 885 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 933 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1814 | struct _qgramComp : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1833 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 46 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 85 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 98 | public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 112 | public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 127 | public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 110 | public std::binary_function < SkewDCStream, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 143 | public std::binary_function < SkewDCStream >, Pack> >, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 99 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 118 | public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 132 | public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 175 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 185 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | struct _skew7NCompMulti : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 97 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 141 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 59 | struct _mapInverse : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 164 | struct _mapInverseMulti : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ @@ -133500,6 +133853,20 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter > seqan::operator+(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = const SimpleType*; TSpec = Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:631:62: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWiseBanded&) [with TDPScout = DPScout_ >, If >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_<>; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWiseBanded = Tag]' 631 | TConstSeqHIterator seqHIterBegin = begin(seqH, Rooted()) + _max(0, _min(seqHlength - 1, lowerDiagonal(band))); @@ -133647,13 +134014,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, SuffixSegment>; typename Iterator >::Type = Iter, Alloc<> >, SuffixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, SuffixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter, Alloc<> >, SuffixSegment>, AdaptorIterator*, Tag > >; typename RemoveReference::Type = Segment, Alloc<> >, SuffixSegment>; typename Iterator >::Type = Iter, Alloc<> >, SuffixSegment>, AdaptorIterator*, Tag > >]' @@ -133755,66 +134115,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_banded_chain_alignment_interface.cpp:43: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment >, InfixSegment>; TIterator = const char*; TSpec = Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:526:58: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, Tag >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment >, InfixSegment>; TSequenceV = Segment >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = BandedChainAlignment_, Tag >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' 526 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; @@ -134447,22 +134747,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment >, seqan::SuffixSegment>; TIterator = const char*; TSpec = seqan::Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:381:19: required from 'void seqan::_computeTrack(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSeqHValue&, const TSeqVValue&, const TSeqVIterator&, const TSeqVIterator&, const TScoringScheme&, TDPCell&, TDPCell&, const TColumnDescriptor&, const TDPProfile&) [with TDPScout = DPScout_ >, Tag >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSeqHValue = char; TSeqVValue = char; TSeqVIterator = Iter >, SuffixSegment>, AdaptorIterator > >; TScoringScheme = Score >; TDPCell = DPCell_ >; TColumnDescriptor = MetaColumnDescriptor, Tag >; TDPProfile = DPProfile_, Tag >, Tag, TracebackOn, Tag > >, Tag >]' 381 | TSeqVIterator iter = seqBegin; @@ -134561,254 +134845,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_suffix.h:129:5: note: because 'seqan::Segment >, seqan::SuffixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' 129 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 666 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 714 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 782 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 851 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 885 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 933 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1814 | struct _qgramComp : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1833 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 46 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 85 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 98 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 112 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 127 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 110 | public std::binary_function < SkewDCStream, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 143 | public std::binary_function < SkewDCStream >, Pack> >, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 99 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 118 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 132 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 175 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 185 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | struct _skew7NCompMulti : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 97 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 141 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 59 | struct _mapInverse : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 164 | struct _mapInverseMulti : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 117 | : data_container(_toPointer(container_)), @@ -138281,15 +138317,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:1057:13: note: at offset 8 into destination object 'string' of size 8 1057 | TString string; | ^~~~~~ -In function 'void testSequenceBack(TString&) [with TString = std::forward_list]', - inlined from 'void StringTestCommon__Back::runTest() [with SEQAN_TParam = std::forward_list]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:1084:21: -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:1062:5: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] - 1062 | val = 'A'; - | ^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h: In member function 'void StringTestCommon__Back::runTest() [with SEQAN_TParam = std::forward_list]': -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:1057:13: note: at offset 8 into destination object 'string' of size 8 - 1057 | TString string; - | ^~~~~~ [ 26%] Linking CXX executable ../../bin/test_seeds_banded_chain_alignment_interface cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/link.d CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o -o ../../bin/test_seeds_banded_chain_alignment_interface -lrt -lz -lbz2 @@ -138818,27 +138845,15 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_packed.h:163:14: note: because 'seqan::String, seqan::Packed<> >' has user-provided 'seqan::String >& seqan::String >::operator=(const seqan::String >&) [with TValue = seqan::SimpleType; THostspec = seqan::Alloc<>]' 163 | String & operator =(String const & source) | ^~~~~~~~ -In file included from /usr/include/c++/15/string:53: -In function 'void std::__assign_one(_OutIter&, _InIter&) [with bool _IsMove = false; _OutIter = char*; _InIter = const char*]', - inlined from '_OutIter std::__copy_move_a2(_InIter, _Sent, _OutIter) [with bool _IsMove = false; _InIter = const char*; _Sent = const char*; _OutIter = char*]' at /usr/include/c++/15/bits/stl_algobase.h:433:34, - inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/15/bits/stl_algobase.h:492:42, - inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/15/bits/stl_algobase.h:500:31, - inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/15/bits/stl_algobase.h:642:7, - inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, - inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, - inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, - inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, - inlined from 'static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const seqan::String >; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1238:31, - inlined from 'void seqan::append(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Array<100>; TSource = String >; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1287:42, - inlined from 'void seqan::append(TTarget&&, const TSource&) [with TTarget = String >&; TSource = String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:903:11, - inlined from 'void testSequenceAppend(TString&) [with TString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:964:15: -/usr/include/c++/15/bits/stl_algobase.h:407:16: warning: 'string2.seqan::String >::data_begin[0]' may be used uninitialized [-Wmaybe-uninitialized] - 407 | *__out = *__in; - | ~~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h: In function 'void testSequenceAppend(TString&) [with TString = seqan::String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:962:17: note: 'string2' declared here - 962 | TString string2; - | ^~~~~~~ +In function 'void testSequenceBack(TString&) [with TString = std::forward_list]', + inlined from 'void StringTestCommon__Back::runTest() [with SEQAN_TParam = std::forward_list]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:1084:21: +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:1062:5: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] + 1062 | val = 'A'; + | ^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h: In member function 'void StringTestCommon__Back::runTest() [with SEQAN_TParam = std::forward_list]': +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:1057:13: note: at offset 8 into destination object 'string' of size 8 + 1057 | TString string; + | ^~~~~~ [ 26%] Linking CXX executable ../../bin/test_stringset_v2 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_stringset_v2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_stringset_v2.dir/link.d CMakeFiles/test_stringset_v2.dir/test_stringset_v2.cpp.o -o ../../bin/test_stringset_v2 -lrt -lz -lbz2 @@ -139050,6 +139065,27 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 26%] Building CXX object tests/simd/CMakeFiles/test_simd_vector_sse4.dir/test_simd_vector.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -msse4 -MD -MT tests/simd/CMakeFiles/test_simd_vector_sse4.dir/test_simd_vector.cpp.o -MF CMakeFiles/test_simd_vector_sse4.dir/test_simd_vector.cpp.o.d -o CMakeFiles/test_simd_vector_sse4.dir/test_simd_vector.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/simd/test_simd_vector.cpp +In file included from /usr/include/c++/15/string:53: +In function 'void std::__assign_one(_OutIter&, _InIter&) [with bool _IsMove = false; _OutIter = char*; _InIter = const char*]', + inlined from '_OutIter std::__copy_move_a2(_InIter, _Sent, _OutIter) [with bool _IsMove = false; _InIter = const char*; _Sent = const char*; _OutIter = char*]' at /usr/include/c++/15/bits/stl_algobase.h:433:34, + inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/15/bits/stl_algobase.h:492:42, + inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/15/bits/stl_algobase.h:500:31, + inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/15/bits/stl_algobase.h:642:7, + inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, + inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, + inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, + inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, + inlined from 'static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const seqan::String >; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1238:31, + inlined from 'void seqan::append(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Array<100>; TSource = String >; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1287:42, + inlined from 'void seqan::append(TTarget&&, const TSource&) [with TTarget = String >&; TSource = String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:903:11, + inlined from 'void testSequenceAppend(TString&) [with TString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:964:15: +/usr/include/c++/15/bits/stl_algobase.h:407:16: warning: 'string2.seqan::String >::data_begin[0]' may be used uninitialized [-Wmaybe-uninitialized] + 407 | *__out = *__in; + | ~~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h: In function 'void testSequenceAppend(TString&) [with TString = seqan::String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:962:17: note: 'string2' declared here + 962 | TString string2; + | ^~~~~~~ [ 27%] Linking CXX executable ../../bin/test_simd_vector_sse4 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_simd_vector_sse4.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_simd_vector_sse4.dir/link.d CMakeFiles/test_simd_vector_sse4.dir/test_simd_vector.cpp.o -o ../../bin/test_simd_vector_sse4 -lrt -lz -lbz2 @@ -139167,11 +139203,11 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 27%] Linking CXX executable ../../bin/test_simple_intervals_io -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_simple_intervals_io.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_simple_intervals_io.dir/link.d CMakeFiles/test_simple_intervals_io.dir/test_simple_intervals_io.cpp.o -o ../../bin/test_simple_intervals_io -lrt -lz -lbz2 +[ 27%] Linking CXX executable ../../bin/test_simd_vector_avx2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_simd_vector_avx2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_simd_vector_avx2.dir/link.d CMakeFiles/test_simd_vector_avx2.dir/test_simd_vector.cpp.o -o ../../bin/test_simd_vector_avx2 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 27%] Built target test_simple_intervals_io +[ 27%] Built target test_simd_vector_avx2 make -f tests/statistics/CMakeFiles/test_statistics.dir/build.make tests/statistics/CMakeFiles/test_statistics.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/statistics /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics/CMakeFiles/test_statistics.dir/DependInfo.cmake "--color=" @@ -139704,15 +139740,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::Alloc<> > >, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = seqan::StringSet, seqan::Alloc<> > >]' 105 | Iter(Iter const & other_) : | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_statistics_statistics() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ -[ 27%] Linking CXX executable ../../bin/test_statistics -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_statistics.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_statistics.dir/link.d CMakeFiles/test_statistics.dir/test_statistics.cpp.o -o ../../bin/test_statistics -lrt -lz -lbz2 +[ 27%] Linking CXX executable ../../bin/test_simple_intervals_io +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_simple_intervals_io.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_simple_intervals_io.dir/link.d CMakeFiles/test_simple_intervals_io.dir/test_simple_intervals_io.cpp.o -o ../../bin/test_simple_intervals_io -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 27%] Built target test_statistics +[ 27%] Built target test_simple_intervals_io make -f tests/store/CMakeFiles/test_store.dir/build.make tests/store/CMakeFiles/test_store.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store/CMakeFiles/test_store.dir/DependInfo.cmake "--color=" @@ -139948,6 +139980,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_statistics_statistics() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -140974,11 +141010,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -[ 27%] Linking CXX executable ../../bin/test_simd_vector_avx2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_simd_vector_avx2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_simd_vector_avx2.dir/link.d CMakeFiles/test_simd_vector_avx2.dir/test_simd_vector.cpp.o -o ../../bin/test_simd_vector_avx2 -lrt -lz -lbz2 +[ 27%] Linking CXX executable ../../bin/test_statistics +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_statistics.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_statistics.dir/link.d CMakeFiles/test_statistics.dir/test_statistics.cpp.o -o ../../bin/test_statistics -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 27%] Built target test_simd_vector_avx2 +[ 27%] Built target test_statistics make -f tests/stream/CMakeFiles/test_stream.dir/build.make tests/stream/CMakeFiles/test_stream.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/stream /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream/CMakeFiles/test_stream.dir/DependInfo.cmake "--color=" @@ -141086,6 +141122,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -141117,64 +141157,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = Segment >, PrefixSegment>]', - inlined from 'int seqan::read(FragmentStore&, TFile&, Amos) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:273:64: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int seqan::read(FragmentStore&, TFile&, Amos) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::Segment >, seqan::PrefixSegment>]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = Segment >, SuffixSegment>]', - inlined from 'int seqan::read(FragmentStore&, TFile&, Amos) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:274:64: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int seqan::read(FragmentStore&, TFile&, Amos) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::Segment >, seqan::SuffixSegment>]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'void seqan::lexicalCastWithException(TTarget&, const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(UcscRecord&, UcscIOContext&, TForwardIter&, const UcscKnownGene&) [with TForwardIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/ucsc_io/ucsc_io.h:302:33, - inlined from 'void seqan::readRecord(UcscRecord&, UcscIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TTagList = TagList >, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/ucsc_io/ucsc_file.h:134:19, - inlined from 'void seqan::readRecords(FragmentStore&, FormattedFile >, Tag, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_ucsc.h:189:19: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:282:9: warning: 'tempBegin' may be used uninitialized [-Wmaybe-uninitialized] - 282 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecords(FragmentStore&, FormattedFile >, Tag, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TSpec = void]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/ucsc_io.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/ucsc_io/ucsc_io.h:301:17: note: 'tempBegin' declared here - 301 | int32_t tempBegin; - | ^~~~~~~~~ -In function 'void seqan::lexicalCastWithException(TTarget&, const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(UcscRecord&, UcscIOContext&, TForwardIter&, const UcscKnownGene&) [with TForwardIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/ucsc_io/ucsc_io.h:315:33, - inlined from 'void seqan::readRecord(UcscRecord&, UcscIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TTagList = TagList >, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/ucsc_io/ucsc_file.h:134:19, - inlined from 'void seqan::readRecords(FragmentStore&, FormattedFile >, Tag, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_ucsc.h:189:19: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:282:9: warning: 'tempEnd' may be used uninitialized [-Wmaybe-uninitialized] - 282 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecords(FragmentStore&, FormattedFile >, Tag, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TSpec = void]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/ucsc_io/ucsc_io.h:314:17: note: 'tempEnd' declared here - 314 | int32_t tempEnd; - | ^~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long long unsigned int; TSource = std::__cxx11::basic_string]', inlined from 'void LexicalCastTest__Exception::runTest() [with SEQAN_TParam = seqan::Pair, void>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/stream/test_stream_lexical_cast.h:233:66: @@ -141224,6 +141206,30 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = Segment >, PrefixSegment>]', + inlined from 'int seqan::read(FragmentStore&, TFile&, Amos) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:273:64: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int seqan::read(FragmentStore&, TFile&, Amos) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::Segment >, seqan::PrefixSegment>]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = Segment >, SuffixSegment>]', + inlined from 'int seqan::read(FragmentStore&, TFile&, Amos) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:274:64: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int seqan::read(FragmentStore&, TFile&, Amos) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::Segment >, seqan::SuffixSegment>]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long long unsigned int; TSource = String >]', inlined from 'void LexicalCastTest__Exception::runTest() [with SEQAN_TParam = seqan::Pair >, void>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/stream/test_stream_lexical_cast.h:233:66: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -141272,6 +141278,36 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In function 'void seqan::lexicalCastWithException(TTarget&, const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(UcscRecord&, UcscIOContext&, TForwardIter&, const UcscKnownGene&) [with TForwardIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/ucsc_io/ucsc_io.h:302:33, + inlined from 'void seqan::readRecord(UcscRecord&, UcscIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TTagList = TagList >, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/ucsc_io/ucsc_file.h:134:19, + inlined from 'void seqan::readRecords(FragmentStore&, FormattedFile >, Tag, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_ucsc.h:189:19: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:282:9: warning: 'tempBegin' may be used uninitialized [-Wmaybe-uninitialized] + 282 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecords(FragmentStore&, FormattedFile >, Tag, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TSpec = void]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/ucsc_io.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/ucsc_io/ucsc_io.h:301:17: note: 'tempBegin' declared here + 301 | int32_t tempBegin; + | ^~~~~~~~~ +In function 'void seqan::lexicalCastWithException(TTarget&, const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(UcscRecord&, UcscIOContext&, TForwardIter&, const UcscKnownGene&) [with TForwardIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/ucsc_io/ucsc_io.h:315:33, + inlined from 'void seqan::readRecord(UcscRecord&, UcscIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TTagList = TagList >, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/ucsc_io/ucsc_file.h:134:19, + inlined from 'void seqan::readRecords(FragmentStore&, FormattedFile >, Tag, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_ucsc.h:189:19: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:282:9: warning: 'tempEnd' may be used uninitialized [-Wmaybe-uninitialized] + 282 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecords(FragmentStore&, FormattedFile >, Tag, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TSpec = void]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/ucsc_io/ucsc_io.h:314:17: note: 'tempEnd' declared here + 314 | int32_t tempEnd; + | ^~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -142328,36 +142364,23 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_tabix_io_read_indexed_vcf() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ -[ 28%] Linking CXX executable ../../bin/test_tabix_io -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tabix_io.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_tabix_io.dir/link.d CMakeFiles/test_tabix_io.dir/test_tabix_io.cpp.o -o ../../bin/test_tabix_io -lrt -lz -lbz2 +[ 27%] Linking CXX executable ../../bin/test_find_swift +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_find_swift.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_find_swift.dir/link.d CMakeFiles/test_find_swift.dir/test_find_swift.cpp.o -o ../../bin/test_find_swift -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 28%] Built target test_tabix_io +[ 27%] Built target test_find_swift make -f tests/translation/CMakeFiles/test_translation.dir/build.make tests/translation/CMakeFiles/test_translation.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/translation /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation/CMakeFiles/test_translation.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/translation/CMakeFiles/test_translation.dir/build.make tests/translation/CMakeFiles/test_translation.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 28%] Building CXX object tests/translation/CMakeFiles/test_translation.dir/test_translation.cpp.o +[ 27%] Building CXX object tests/translation/CMakeFiles/test_translation.dir/test_translation.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/translation/CMakeFiles/test_translation.dir/test_translation.cpp.o -MF CMakeFiles/test_translation.dir/test_translation.cpp.o.d -o CMakeFiles/test_translation.dir/test_translation.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/translation/test_translation.cpp -[ 28%] Linking CXX executable ../../bin/test_find_swift -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_find_swift.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_find_swift.dir/link.d CMakeFiles/test_find_swift.dir/test_find_swift.cpp.o -o ../../bin/test_find_swift -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 28%] Built target test_find_swift -make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 28%] Building CXX object tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o -MF CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o.d -o CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io/test_ucsc_io.cpp +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_tabix_io_read_indexed_vcf() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/translation/test_translation.cpp:38: @@ -142452,97 +142475,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io/test_ucsc_io.cpp:42: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/istream:42, - from /usr/include/c++/15/sstream:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io/test_ucsc_io.cpp:38: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_string.h: In instantiation of 'seqan::ModifiedString::ModifiedString(THost_&&, typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type*) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::PrefixSegment>&; THost = seqan::ModifiedString, seqan::Alloc<> >, seqan::PrefixSegment>, seqan::ModView > > >; TSpec = seqan::Tag; typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type = void; typename seqan::RemoveReference::Type = seqan::ModifiedString, seqan::Alloc<> >, seqan::PrefixSegment>, seqan::ModView > > >; typename seqan::RemoveReference::Type = seqan::Segment, seqan::Alloc<> >, seqan::PrefixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/translation/translation.h:290:37: required from 'void seqan::_translateImplLoop(StringSet, TSpec1>, TSpec2>&, unsigned int, const StringSet&, const GeneticCode&, const Frames_<6>&) [with TSpec1 = Alloc<>; TSpec2 = Owner<>; TSpec3 = Dependent >; TInString = String, Alloc<> >; GeneticCodeSpec CODE_SPEC = seqan::CANONICAL]' @@ -143003,6 +142935,110 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +[ 28%] Linking CXX executable ../../bin/test_tabix_io +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tabix_io.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_tabix_io.dir/link.d CMakeFiles/test_tabix_io.dir/test_tabix_io.cpp.o -o ../../bin/test_tabix_io -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 28%] Built target test_tabix_io +make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 28%] Building CXX object tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o -MF CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o.d -o CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io/test_ucsc_io.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io/test_ucsc_io.cpp:42: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/istream:42, + from /usr/include/c++/15/sstream:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io/test_ucsc_io.cpp:38: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Ucsc_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >, TagList > > >]' @@ -143427,10 +143463,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ [ 28%] Linking CXX executable ../../bin/test_translation cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_translation.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_translation.dir/link.d CMakeFiles/test_translation.dir/test_translation.cpp.o -o ../../bin/test_translation -lrt -lz -lbz2 @@ -143444,32 +143476,10 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 28%] Building CXX object demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/blast/blast_in_lowlevel.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/blast/blast_in_lowlevel.cpp.o -MF CMakeFiles/demo_blast_blast_in_lowlevel.dir/blast/blast_in_lowlevel.cpp.o.d -o CMakeFiles/demo_blast_blast_in_lowlevel.dir/blast/blast_in_lowlevel.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/blast/blast_in_lowlevel.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(VcfRecord&, VcfIOContext&, TForwardIter&, const Vcf&) [with TForwardIter = Iter, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Owner<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io/read_vcf.h:192:43, - inlined from 'void SEQAN_TEST_test_vcf_io_write_vcf_record() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/vcf_io/test_vcf_io.h:369:19: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void SEQAN_TEST_test_vcf_io_write_vcf_record() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(VcfRecord&, VcfIOContext&, TForwardIter&, const Vcf&) [with TForwardIter = Iter >, AdaptorIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Owner<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io/read_vcf.h:192:43: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(VcfRecord&, VcfIOContext&, TForwardIter&, const Vcf&) [with TForwardIter = Iter >, AdaptorIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Owner<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/blast.h:56, @@ -143566,10 +143576,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_vcf_io_isOpen_fileIn() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -143615,8 +143621,34 @@ | ^ [ 29%] Linking CXX executable ../bin/demo_blast_blast_in_lowlevel cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_blast_blast_in_lowlevel.dir/link.txt --verbose=1 +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(VcfRecord&, VcfIOContext&, TForwardIter&, const Vcf&) [with TForwardIter = Iter, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Owner<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io/read_vcf.h:192:43, + inlined from 'void SEQAN_TEST_test_vcf_io_write_vcf_record() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/vcf_io/test_vcf_io.h:369:19: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void SEQAN_TEST_test_vcf_io_write_vcf_record() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_blast_blast_in_lowlevel.dir/link.d CMakeFiles/demo_blast_blast_in_lowlevel.dir/blast/blast_in_lowlevel.cpp.o -o ../bin/demo_blast_blast_in_lowlevel -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(VcfRecord&, VcfIOContext&, TForwardIter&, const Vcf&) [with TForwardIter = Iter >, AdaptorIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Owner<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io/read_vcf.h:192:43: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(VcfRecord&, VcfIOContext&, TForwardIter&, const Vcf&) [with TForwardIter = Iter >, AdaptorIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Owner<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ [ 29%] Built target demo_blast_blast_in_lowlevel make -f demos/CMakeFiles/demo_dox_align_align.dir/build.make demos/CMakeFiles/demo_dox_align_align.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -143626,6 +143658,10 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 29%] Building CXX object demos/CMakeFiles/demo_dox_align_align.dir/dox/align/align.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_align.dir/dox/align/align.cpp.o -MF CMakeFiles/demo_dox_align_align.dir/dox/align/align.cpp.o.d -o CMakeFiles/demo_dox_align_align.dir/dox/align/align.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/align.cpp +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_vcf_io_isOpen_fileIn() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -143721,19 +143757,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 29%] Linking CXX executable ../../bin/test_vcf_io -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_vcf_io.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_vcf_io.dir/link.d CMakeFiles/test_vcf_io.dir/test_vcf_io.cpp.o -o ../../bin/test_vcf_io -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Built target test_vcf_io -make -f demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build.make demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build.make demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Building CXX object demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o -MF CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o.d -o CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/compute_alignment_stats.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -143764,6 +143787,32 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 29%] Linking CXX executable ../../bin/test_vcf_io +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_vcf_io.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_vcf_io.dir/link.d CMakeFiles/test_vcf_io.dir/test_vcf_io.cpp.o -o ../../bin/test_vcf_io -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 29%] Built target test_vcf_io +make -f demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build.make demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build.make demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 29%] Building CXX object demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o -MF CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o.d -o CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/compute_alignment_stats.cpp +[ 29%] Linking CXX executable ../bin/demo_dox_align_align +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_align.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_align.dir/link.d CMakeFiles/demo_dox_align_align.dir/dox/align/align.cpp.o -o ../bin/demo_dox_align_align -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 29%] Built target demo_dox_align_align +make -f demos/CMakeFiles/demo_dox_align_gaps_example.dir/build.make demos/CMakeFiles/demo_dox_align_gaps_example.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_gaps_example.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_align_gaps_example.dir/build.make demos/CMakeFiles/demo_dox_align_gaps_example.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 29%] Building CXX object demos/CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o -MF CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o.d -o CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/gaps_example.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/compute_alignment_stats.cpp:3: @@ -143887,32 +143936,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 29%] Linking CXX executable ../bin/demo_dox_align_align -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_align.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_align.dir/link.d CMakeFiles/demo_dox_align_align.dir/dox/align/align.cpp.o -o ../bin/demo_dox_align_align -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Built target demo_dox_align_align -make -f demos/CMakeFiles/demo_dox_align_gaps_example.dir/build.make demos/CMakeFiles/demo_dox_align_gaps_example.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_gaps_example.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_align_gaps_example.dir/build.make demos/CMakeFiles/demo_dox_align_gaps_example.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Building CXX object demos/CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o -MF CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o.d -o CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/gaps_example.cpp -[ 29%] Linking CXX executable ../bin/demo_dox_align_compute_alignment_stats -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_compute_alignment_stats.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_compute_alignment_stats.dir/link.d CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o -o ../bin/demo_dox_align_compute_alignment_stats -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Built target demo_dox_align_compute_alignment_stats -make -f demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Building CXX object demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o -MF CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o.d -o CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_banded.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/gaps_example.cpp:1: @@ -144041,6 +144064,30 @@ | ^~~~~~~~~~~~~~~ [ 29%] Linking CXX executable ../bin/demo_dox_align_gaps_example cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_gaps_example.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_gaps_example.dir/link.d CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o -o ../bin/demo_dox_align_gaps_example -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 29%] Built target demo_dox_align_gaps_example +make -f demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 29%] Building CXX object demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o -MF CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o.d -o CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_banded.cpp +[ 29%] Linking CXX executable ../bin/demo_dox_align_compute_alignment_stats +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_compute_alignment_stats.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_compute_alignment_stats.dir/link.d CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o -o ../bin/demo_dox_align_compute_alignment_stats -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 29%] Built target demo_dox_align_compute_alignment_stats +make -f demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 29%] Building CXX object demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o -MF CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o.d -o CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_unbanded.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_banded.cpp:4: @@ -144125,17 +144172,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_gaps_example.dir/link.d CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o -o ../bin/demo_dox_align_gaps_example -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Built target demo_dox_align_gaps_example -make -f demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Building CXX object demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o -MF CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o.d -o CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_unbanded.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -144298,24 +144334,24 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 29%] Linking CXX executable ../bin/demo_dox_align_global_alignment_banded -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_global_alignment_banded.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_global_alignment_banded.dir/link.d CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o -o ../bin/demo_dox_align_global_alignment_banded -lrt -lz -lbz2 +[ 30%] Linking CXX executable ../bin/demo_dox_align_global_alignment_unbanded +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/link.d CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o -o ../bin/demo_dox_align_global_alignment_unbanded -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Built target demo_dox_align_global_alignment_banded +[ 30%] Built target demo_dox_align_global_alignment_unbanded make -f demos/CMakeFiles/demo_dox_align_integrate_align.dir/build.make demos/CMakeFiles/demo_dox_align_integrate_align.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_integrate_align.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_align_integrate_align.dir/build.make demos/CMakeFiles/demo_dox_align_integrate_align.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Building CXX object demos/CMakeFiles/demo_dox_align_integrate_align.dir/dox/align/integrate_align.cpp.o +[ 30%] Building CXX object demos/CMakeFiles/demo_dox_align_integrate_align.dir/dox/align/integrate_align.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_integrate_align.dir/dox/align/integrate_align.cpp.o -MF CMakeFiles/demo_dox_align_integrate_align.dir/dox/align/integrate_align.cpp.o.d -o CMakeFiles/demo_dox_align_integrate_align.dir/dox/align/integrate_align.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/integrate_align.cpp -[ 30%] Linking CXX executable ../bin/demo_dox_align_global_alignment_unbanded -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/link.d CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o -o ../bin/demo_dox_align_global_alignment_unbanded -lrt -lz -lbz2 +[ 30%] Linking CXX executable ../bin/demo_dox_align_global_alignment_banded +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_global_alignment_banded.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_global_alignment_banded.dir/link.d CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o -o ../bin/demo_dox_align_global_alignment_banded -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 30%] Built target demo_dox_align_global_alignment_unbanded +[ 30%] Built target demo_dox_align_global_alignment_banded make -f demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/DependInfo.cmake "--color=" @@ -144447,6 +144483,129 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_extend/extend_alignment.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_extend/extend_alignment.cpp:1: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:55: @@ -144709,129 +144868,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_extend/extend_alignment.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_extend/extend_alignment.cpp:1: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, @@ -146322,17 +146358,6 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/dox/align_profile/profile_seq_score.cpp.o -MF CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/dox/align_profile/profile_seq_score.cpp.o.d -o CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/dox/align_profile/profile_seq_score.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_profile/profile_seq_score.cpp [ 30%] Linking CXX executable ../bin/demo_dox_align_profile_profile_seq_frac_score cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/link.d CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/dox/align_profile/profile_seq_frac_score.cpp.o -o ../bin/demo_dox_align_profile_profile_seq_frac_score -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 30%] Built target demo_dox_align_profile_profile_seq_frac_score -make -f demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 30%] Building CXX object demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o -MF CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o.d -o CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_split/split_alignment.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align_profile.h:44, @@ -146411,6 +146436,8 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/link.d CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/dox/align_profile/profile_seq_frac_score.cpp.o -o ../bin/demo_dox_align_profile_profile_seq_frac_score -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -146418,6 +146445,10 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 30%] Built target demo_dox_align_profile_profile_seq_frac_score +make -f demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -146429,6 +146460,11 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 30%] Building CXX object demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o -MF CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o.d -o CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_split/split_alignment.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -146680,86 +146716,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_split/split_alignment.cpp:1: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:55: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function @@ -146804,13 +146760,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 143 | public std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ @@ -146899,17 +146848,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 556 | public std::binary_function< Pair, Pair, bool> @@ -146917,34 +146855,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -147029,6 +146939,132 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_split/split_alignment.cpp:1: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:55: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ [ 30%] Linking CXX executable ../bin/demo_dox_align_profile_profile_seq_score cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/link.d CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/dox/align_profile/profile_seq_score.cpp.o -o ../bin/demo_dox_align_profile_profile_seq_score -lrt -lz -lbz2 @@ -147042,8 +147078,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 30%] Building CXX object demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/dox/arg_parse/argument_parser.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/dox/arg_parse/argument_parser.cpp.o -MF CMakeFiles/demo_dox_arg_parse_argument_parser.dir/dox/arg_parse/argument_parser.cpp.o.d -o CMakeFiles/demo_dox_arg_parse_argument_parser.dir/dox/arg_parse/argument_parser.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/arg_parse/argument_parser.cpp -[ 30%] Linking CXX executable ../bin/demo_dox_align_split_split_alignment -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_split_split_alignment.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -147136,6 +147170,8 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 30%] Linking CXX executable ../bin/demo_dox_align_split_split_alignment +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_split_split_alignment.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_split_split_alignment.dir/link.d CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o -o ../bin/demo_dox_align_split_split_alignment -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 30%] Built target demo_dox_align_split_split_alignment @@ -147742,8 +147778,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 31%] Linking CXX executable ../bin/demo_dox_arg_parse_argument_parser -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_arg_parse_argument_parser.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 63 | struct LessPairI1_ : public std::unary_function, bool> @@ -147764,6 +147798,8 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 31%] Linking CXX executable ../bin/demo_dox_arg_parse_argument_parser +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_arg_parse_argument_parser.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_arg_parse_argument_parser.dir/link.d CMakeFiles/demo_dox_arg_parse_argument_parser.dir/dox/arg_parse/argument_parser.cpp.o -o ../bin/demo_dox_arg_parse_argument_parser -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 31%] Built target demo_dox_arg_parse_argument_parser @@ -148061,19 +148097,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 31%] Linking CXX executable ../bin/demo_dox_basic_metaprogramming_logic -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/link.d CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/dox/basic/metaprogramming_logic.cpp.o -o ../bin/demo_dox_basic_metaprogramming_logic -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 31%] Built target demo_dox_basic_metaprogramming_logic -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 31%] Building CXX object demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o -MF CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o.d -o CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/metaprogramming_math.cpp In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -148205,8 +148228,25 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 31%] Linking CXX executable ../bin/demo_dox_basic_metaprogramming_logic +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/link.d CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/dox/basic/metaprogramming_logic.cpp.o -o ../bin/demo_dox_basic_metaprogramming_logic -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 31%] Built target demo_dox_basic_metaprogramming_logic +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 31%] Building CXX object demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o -MF CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o.d -o CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/metaprogramming_math.cpp +[ 31%] Linking CXX executable ../bin/demo_dox_bam_io_bam_tags_dict +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/link.txt --verbose=1 [ 31%] Linking CXX executable ../bin/demo_dox_basic_metaprogramming_math cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_metaprogramming_math.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/link.d CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/dox/bam_io/bam_tags_dict.cpp.o -o ../bin/demo_dox_bam_io_bam_tags_dict -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_metaprogramming_math.dir/link.d CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o -o ../bin/demo_dox_basic_metaprogramming_math -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 31%] Built target demo_dox_basic_metaprogramming_math @@ -148218,10 +148258,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 31%] Building CXX object demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/dox/basic/metaprogramming_switch.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/dox/basic/metaprogramming_switch.cpp.o -MF CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/dox/basic/metaprogramming_switch.cpp.o.d -o CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/dox/basic/metaprogramming_switch.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/metaprogramming_switch.cpp -[ 31%] Linking CXX executable ../bin/demo_dox_bam_io_bam_tags_dict -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/link.d CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/dox/bam_io/bam_tags_dict.cpp.o -o ../bin/demo_dox_bam_io_bam_tags_dict -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 31%] Built target demo_dox_bam_io_bam_tags_dict make -f demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build.make demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -148233,21 +148269,21 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/dox/basic/simple_type_construction.cpp.o -MF CMakeFiles/demo_dox_basic_simple_type_construction.dir/dox/basic/simple_type_construction.cpp.o.d -o CMakeFiles/demo_dox_basic_simple_type_construction.dir/dox/basic/simple_type_construction.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/simple_type_construction.cpp [ 32%] Linking CXX executable ../bin/demo_dox_basic_metaprogramming_switch cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/link.txt --verbose=1 +[ 32%] Linking CXX executable ../bin/demo_dox_basic_simple_type_construction +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_simple_type_construction.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/link.d CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/dox/basic/metaprogramming_switch.cpp.o -o ../bin/demo_dox_basic_metaprogramming_switch -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 32%] Built target demo_dox_basic_metaprogramming_switch make -f demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build.make demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_simple_type_construction.dir/link.d CMakeFiles/demo_dox_basic_simple_type_construction.dir/dox/basic/simple_type_construction.cpp.o -o ../bin/demo_dox_basic_simple_type_construction -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build.make demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 32%] Building CXX object demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/dox/basic/zip_iterator.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/dox/basic/zip_iterator.cpp.o -MF CMakeFiles/demo_dox_basic_zip_iterator.dir/dox/basic/zip_iterator.cpp.o.d -o CMakeFiles/demo_dox_basic_zip_iterator.dir/dox/basic/zip_iterator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/zip_iterator.cpp -[ 32%] Linking CXX executable ../bin/demo_dox_basic_simple_type_construction -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_simple_type_construction.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_simple_type_construction.dir/link.d CMakeFiles/demo_dox_basic_simple_type_construction.dir/dox/basic/simple_type_construction.cpp.o -o ../bin/demo_dox_basic_simple_type_construction -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 32%] Built target demo_dox_basic_simple_type_construction make -f demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build.make demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -148535,6 +148571,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 32%] Linking CXX executable ../bin/demo_dox_bed_io_UNUSED_bed_stream_read +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/link.d CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/dox/bed_io/UNUSED_bed_stream_read.cpp.o -o ../bin/demo_dox_bed_io_UNUSED_bed_stream_read -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 32%] Built target demo_dox_bed_io_UNUSED_bed_stream_read +make -f demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 32%] Building CXX object demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o -MF CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o.d -o CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_aho_corasick.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -148754,8 +148803,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 32%] Linking CXX executable ../bin/demo_dox_bed_io_UNUSED_bed_stream_read -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 351 | struct insertBucket : public std::unary_function @@ -148794,15 +148841,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/link.d CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/dox/bed_io/UNUSED_bed_stream_read.cpp.o -o ../bin/demo_dox_bed_io_UNUSED_bed_stream_read -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 32%] Built target demo_dox_bed_io_UNUSED_bed_stream_read -make -f demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -148817,11 +148855,9 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 32%] Building CXX object demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 646 | struct FunctorGlobalize : public std::unary_function | ^~~~~~~~~~~~~~ -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o -MF CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o.d -o CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_aho_corasick.cpp /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -149032,6 +149068,85 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_aho_corasick.cpp:1: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/bits/refwrap.h:41, + from /usr/include/c++/15/deque:69, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:41: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -149039,6 +149154,16 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' @@ -149141,6 +149266,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' 88 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -149166,48 +149306,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_aho_corasick.cpp:1: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/bits/refwrap.h:41, - from /usr/include/c++/15/deque:69, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:41: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' 205 | return TProxy(it); @@ -149232,24 +149330,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' 205 | return TProxy(it); @@ -149274,25 +149354,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign.h:55, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_aligner_interface.h:38, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:68: @@ -149817,16 +149878,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h: In instantiation of 'static void seqan::AppendValueToString_::appendValue_(T&, TValue&&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&; TExpand = seqan::Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1366:54: required from 'void seqan::appendValue(String&, TValue&&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = const Segment, Alloc<> >, InfixSegment>&; TExpand = TagGenerous_]' 1366 | AppendValueToString_ >::appendValue_(me, std::forward(_value)); @@ -149931,14 +149982,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 117 | : data_container(_toPointer(container_)), @@ -149976,13 +150019,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 117 | : data_container(_toPointer(container_)), @@ -152015,6 +152051,8 @@ | ^~~~~~ [ 34%] Linking CXX executable ../bin/demo_dox_gff_io_UNUSED_gff_stream_read cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/link.txt --verbose=1 +[ 34%] Linking CXX executable ../bin/demo_dox_consensus_consensus_alignment +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_consensus_consensus_alignment.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/link.d CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/dox/gff_io/UNUSED_gff_stream_read.cpp.o -o ../bin/demo_dox_gff_io_UNUSED_gff_stream_read -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 34%] Built target demo_dox_gff_io_UNUSED_gff_stream_read @@ -152026,8 +152064,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 34%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/dox/graph_algorithms/all_pairs_shortest_path.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/dox/graph_algorithms/all_pairs_shortest_path.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/dox/graph_algorithms/all_pairs_shortest_path.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/dox/graph_algorithms/all_pairs_shortest_path.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/all_pairs_shortest_path.cpp -[ 34%] Linking CXX executable ../bin/demo_dox_consensus_consensus_alignment -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_consensus_consensus_alignment.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_consensus_consensus_alignment.dir/link.d CMakeFiles/demo_dox_consensus_consensus_alignment.dir/dox/consensus/consensus_alignment.cpp.o -o ../bin/demo_dox_consensus_consensus_alignment -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 34%] Built target demo_dox_consensus_consensus_alignment @@ -152133,20 +152169,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -152234,6 +152256,20 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -152255,11 +152291,11 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 34%] Linking CXX executable ../bin/demo_dox_graph_algorithms_all_pairs_shortest_path -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/link.d CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/dox/graph_algorithms/all_pairs_shortest_path.cpp.o -o ../bin/demo_dox_graph_algorithms_all_pairs_shortest_path -lrt -lz -lbz2 +[ 34%] Linking CXX executable ../bin/demo_dox_graph_algorithms_bellman_ford_algorithm +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/link.d CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/dox/graph_algorithms/bellman_ford_algorithm.cpp.o -o ../bin/demo_dox_graph_algorithms_bellman_ford_algorithm -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 34%] Built target demo_dox_graph_algorithms_all_pairs_shortest_path +[ 34%] Built target demo_dox_graph_algorithms_bellman_ford_algorithm make -f demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/DependInfo.cmake "--color=" @@ -152268,11 +152304,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 34%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/dox/graph_algorithms/breadth_first_search.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/dox/graph_algorithms/breadth_first_search.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/dox/graph_algorithms/breadth_first_search.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/dox/graph_algorithms/breadth_first_search.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/breadth_first_search.cpp -[ 34%] Linking CXX executable ../bin/demo_dox_graph_algorithms_bellman_ford_algorithm -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/link.d CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/dox/graph_algorithms/bellman_ford_algorithm.cpp.o -o ../bin/demo_dox_graph_algorithms_bellman_ford_algorithm -lrt -lz -lbz2 +[ 34%] Linking CXX executable ../bin/demo_dox_graph_algorithms_all_pairs_shortest_path +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/link.d CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/dox/graph_algorithms/all_pairs_shortest_path.cpp.o -o ../bin/demo_dox_graph_algorithms_all_pairs_shortest_path -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 34%] Built target demo_dox_graph_algorithms_bellman_ford_algorithm +[ 34%] Built target demo_dox_graph_algorithms_all_pairs_shortest_path make -f demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/DependInfo.cmake "--color=" @@ -152512,17 +152548,6 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/dox/graph_algorithms/depth_first_search.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/dox/graph_algorithms/depth_first_search.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/dox/graph_algorithms/depth_first_search.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/depth_first_search.cpp [ 34%] Linking CXX executable ../bin/demo_dox_graph_algorithms_dag_shortest_path cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/link.d CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/dox/graph_algorithms/dag_shortest_path.cpp.o -o ../bin/demo_dox_graph_algorithms_dag_shortest_path -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 34%] Built target demo_dox_graph_algorithms_dag_shortest_path -make -f demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 34%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/dijkstra.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -152610,6 +152635,7 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/link.d CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/dox/graph_algorithms/dag_shortest_path.cpp.o -o ../bin/demo_dox_graph_algorithms_dag_shortest_path -lrt -lz -lbz2 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -152617,6 +152643,16 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 34%] Built target demo_dox_graph_algorithms_dag_shortest_path +make -f demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 34%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/dijkstra.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 325 | public std::unary_function, bool> @@ -152873,6 +152909,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 35%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/ford_fulkerson_algorithm.cpp +[ 35%] Linking CXX executable ../bin/demo_dox_graph_algorithms_floyd_warshall_algorithm +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/link.d CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/dox/graph_algorithms/floyd_warshall_algorithm.cpp.o -o ../bin/demo_dox_graph_algorithms_floyd_warshall_algorithm -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 35%] Built target demo_dox_graph_algorithms_floyd_warshall_algorithm +make -f demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 35%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/heaviest_increasing_subsequence.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -152981,19 +153030,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 35%] Linking CXX executable ../bin/demo_dox_graph_algorithms_floyd_warshall_algorithm -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/link.d CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/dox/graph_algorithms/floyd_warshall_algorithm.cpp.o -o ../bin/demo_dox_graph_algorithms_floyd_warshall_algorithm -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 35%] Built target demo_dox_graph_algorithms_floyd_warshall_algorithm -make -f demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 35%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/heaviest_increasing_subsequence.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -153102,30 +153138,30 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 35%] Linking CXX executable ../bin/demo_dox_graph_algorithms_heaviest_increasing_subsequence [ 35%] Linking CXX executable ../bin/demo_dox_graph_algorithms_ford_fulkerson_algorithm cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/link.txt --verbose=1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/link.d CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o -o ../bin/demo_dox_graph_algorithms_heaviest_increasing_subsequence -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/link.d CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.o -o ../bin/demo_dox_graph_algorithms_ford_fulkerson_algorithm -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 35%] Built target demo_dox_graph_algorithms_ford_fulkerson_algorithm +[ 35%] Built target demo_dox_graph_algorithms_heaviest_increasing_subsequence make -f demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 35%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/dox/graph_algorithms/kruskals_algorithm.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/dox/graph_algorithms/kruskals_algorithm.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/dox/graph_algorithms/kruskals_algorithm.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/dox/graph_algorithms/kruskals_algorithm.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/kruskals_algorithm.cpp -[ 35%] Linking CXX executable ../bin/demo_dox_graph_algorithms_heaviest_increasing_subsequence -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/link.d CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o -o ../bin/demo_dox_graph_algorithms_heaviest_increasing_subsequence -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 35%] Built target demo_dox_graph_algorithms_heaviest_increasing_subsequence +[ 35%] Built target demo_dox_graph_algorithms_ford_fulkerson_algorithm make -f demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 35%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/dox/graph_algorithms/kruskals_algorithm.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/dox/graph_algorithms/kruskals_algorithm.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/dox/graph_algorithms/kruskals_algorithm.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/dox/graph_algorithms/kruskals_algorithm.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/kruskals_algorithm.cpp [ 35%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/dox/graph_algorithms/longest_common_subsequence.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/dox/graph_algorithms/longest_common_subsequence.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/dox/graph_algorithms/longest_common_subsequence.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/dox/graph_algorithms/longest_common_subsequence.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/longest_common_subsequence.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, @@ -153601,8 +153637,6 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/dox/graph_algorithms/strongly_connected_components.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/dox/graph_algorithms/strongly_connected_components.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/dox/graph_algorithms/strongly_connected_components.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/strongly_connected_components.cpp [ 36%] Linking CXX executable ../bin/demo_dox_graph_algorithms_prims_algorithm cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/link.d CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/dox/graph_algorithms/prims_algorithm.cpp.o -o ../bin/demo_dox_graph_algorithms_prims_algorithm -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -153683,10 +153717,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 36%] Built target demo_dox_graph_algorithms_prims_algorithm -make -f demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -153694,11 +153724,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 36%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/topological_sort.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -153720,6 +153745,17 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/link.d CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/dox/graph_algorithms/prims_algorithm.cpp.o -o ../bin/demo_dox_graph_algorithms_prims_algorithm -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 36%] Built target demo_dox_graph_algorithms_prims_algorithm +make -f demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 36%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/topological_sort.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -153830,23 +153866,23 @@ | ^~~~~~~~~~~~~~ [ 36%] Linking CXX executable ../bin/demo_dox_graph_algorithms_strongly_connected_components cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/link.txt --verbose=1 -[ 36%] Linking CXX executable ../bin/demo_dox_graph_algorithms_topological_sort -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/link.d CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/dox/graph_algorithms/strongly_connected_components.cpp.o -o ../bin/demo_dox_graph_algorithms_strongly_connected_components -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 36%] Built target demo_dox_graph_algorithms_strongly_connected_components make -f demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/link.d CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o -o ../bin/demo_dox_graph_algorithms_topological_sort -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 36%] Built target demo_dox_graph_algorithms_topological_sort [ 36%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/dox/graph_algorithms/transitive_closure.cpp.o -make -f demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build.make demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/depend cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/dox/graph_algorithms/transitive_closure.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/dox/graph_algorithms/transitive_closure.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/dox/graph_algorithms/transitive_closure.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/transitive_closure.cpp +[ 36%] Linking CXX executable ../bin/demo_dox_graph_algorithms_topological_sort +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/link.d CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o -o ../bin/demo_dox_graph_algorithms_topological_sort -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 36%] Built target demo_dox_graph_algorithms_topological_sort +make -f demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build.make demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -154366,6 +154402,17 @@ | ^~~~~~~~~~~~~~ [ 37%] Linking CXX executable ../bin/demo_dox_graph_align_graph_align cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_align_graph_align.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_align_graph_align.dir/link.d CMakeFiles/demo_dox_graph_align_graph_align.dir/dox/graph_align/graph_align.cpp.o -o ../bin/demo_dox_graph_align_graph_align -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 37%] Built target demo_dox_graph_align_graph_align +make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 37%] Building CXX object demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o -MF CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o.d -o CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/UNUSED_shape_hash.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -154595,8 +154642,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_align_graph_align.dir/link.d CMakeFiles/demo_dox_graph_align_graph_align.dir/dox/graph_align/graph_align.cpp.o -o ../bin/demo_dox_graph_align_graph_align -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public std::unary_function { @@ -154611,15 +154656,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 37%] Built target demo_dox_graph_align_graph_align -make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 37%] Building CXX object demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o -MF CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o.d -o CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/UNUSED_shape_hash.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -154627,19 +154663,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 37%] Linking CXX executable ../bin/demo_dox_index_UNUSED_shape -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_UNUSED_shape.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_UNUSED_shape.dir/link.d CMakeFiles/demo_dox_index_UNUSED_shape.dir/dox/index/UNUSED_shape.cpp.o -o ../bin/demo_dox_index_UNUSED_shape -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 37%] Built target demo_dox_index_UNUSED_shape -make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 37%] Building CXX object demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/dox/index/UNUSED_shape_hash_next.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/dox/index/UNUSED_shape_hash_next.cpp.o -MF CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/dox/index/UNUSED_shape_hash_next.cpp.o.d -o CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/dox/index/UNUSED_shape_hash_next.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/UNUSED_shape_hash_next.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -154786,6 +154809,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 37%] Linking CXX executable ../bin/demo_dox_index_UNUSED_shape +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_UNUSED_shape.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_UNUSED_shape.dir/link.d CMakeFiles/demo_dox_index_UNUSED_shape.dir/dox/index/UNUSED_shape.cpp.o -o ../bin/demo_dox_index_UNUSED_shape -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 37%] Built target demo_dox_index_UNUSED_shape +make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 37%] Building CXX object demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/dox/index/UNUSED_shape_hash_next.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/dox/index/UNUSED_shape_hash_next.cpp.o -MF CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/dox/index/UNUSED_shape_hash_next.cpp.o.d -o CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/dox/index/UNUSED_shape_hash_next.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/UNUSED_shape_hash_next.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -155036,6 +155072,8 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 37%] Linking CXX executable ../bin/demo_dox_index_UNUSED_shape_hash +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -155182,6 +155220,17 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/link.d CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o -o ../bin/demo_dox_index_UNUSED_shape_hash -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 37%] Built target demo_dox_index_UNUSED_shape_hash +make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 37%] Building CXX object demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o -MF CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o.d -o CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_atEnd_representative.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -155432,32 +155481,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 37%] Linking CXX executable ../bin/demo_dox_index_UNUSED_shape_hash -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/link.d CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o -o ../bin/demo_dox_index_UNUSED_shape_hash -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 37%] Built target demo_dox_index_UNUSED_shape_hash -make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 37%] Building CXX object demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o -MF CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o.d -o CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_atEnd_representative.cpp -[ 37%] Linking CXX executable ../bin/demo_dox_index_UNUSED_shape_hash_next -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/link.d CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/dox/index/UNUSED_shape_hash_next.cpp.o -o ../bin/demo_dox_index_UNUSED_shape_hash_next -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 37%] Built target demo_dox_index_UNUSED_shape_hash_next -make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 37%] Building CXX object demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o -MF CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o.d -o CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_atEnd_representative_bottomUp.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -155604,6 +155627,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 37%] Linking CXX executable ../bin/demo_dox_index_UNUSED_shape_hash_next +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/link.d CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/dox/index/UNUSED_shape_hash_next.cpp.o -o ../bin/demo_dox_index_UNUSED_shape_hash_next -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 37%] Built target demo_dox_index_UNUSED_shape_hash_next +make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 37%] Building CXX object demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o -MF CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o.d -o CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_atEnd_representative_bottomUp.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -155695,33 +155731,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_atEnd_representative_bottomUp.cpp:1: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/bits/stl_tree.h:67, - from /usr/include/c++/15/map:64, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:41: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -155729,60 +155738,12 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 85 | public std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function @@ -155820,13 +155781,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 110 | public std::binary_function < SkewDCStream, @@ -155929,70 +155883,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -156228,6 +156118,152 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_atEnd_representative_bottomUp.cpp:1: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/bits/stl_tree.h:67, + from /usr/include/c++/15/map:64, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:41: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -156584,19 +156620,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 37%] Building CXX object demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o -MF CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o.d -o CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp -[ 37%] Linking CXX executable ../bin/demo_dox_index_begin_atEnd_representative_bottomUp -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/link.d CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o -o ../bin/demo_dox_index_begin_atEnd_representative_bottomUp -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 37%] Built target demo_dox_index_begin_atEnd_representative_bottomUp -make -f demos/CMakeFiles/demo_dox_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_counting.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 37%] Building CXX object demos/CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o -MF CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o.d -o CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/counting.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -156743,156 +156766,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/counting.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/counting.cpp:2: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ +[ 37%] Linking CXX executable ../bin/demo_dox_index_begin_atEnd_representative_bottomUp +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/link.d CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o -o ../bin/demo_dox_index_begin_atEnd_representative_bottomUp -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 37%] Built target demo_dox_index_begin_atEnd_representative_bottomUp +make -f demos/CMakeFiles/demo_dox_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_counting.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 37%] Building CXX object demos/CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o -MF CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o.d -o CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/counting.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -157143,6 +157029,287 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index > >; TSpec = Preorder]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = String >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' + 1491 | _historyClear(it); + | ~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:18:11: required from here + 18 | goRoot(it); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 1731 | it._parentDesc = value(it); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:137: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index > >; TSpec = TopDown<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index > >; TSpec = TopDown<>]' + 2236 | _clear(it); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1492:14: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = String >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' + 1492 | clear(it); // start in root node with range (0,infty) + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:18:11: required from here + 18 | goRoot(it); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'bool seqan::_goDownChar(Iter > >&, TValue) [with TIndex = Index > >; TSpec = Preorder; TValue = char]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1928:27: required from 'bool seqan::_goDownString(Iter > >&, const TString&, TSize&) [with TIndex = Index > >; TSpec = Preorder; TString = char [5]; TSize = long unsigned int]' + 1928 | while (_goDownChar(node, *p_begin)) + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1974:29: required from 'bool seqan::_goDownObject(Iter > >&, const TObject&, True) [with TIndex = Index > >; TSpec = Preorder; TObject = char [5]]' + 1974 | return _goDownString(it, obj, dummy); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1985:29: required from 'bool seqan::goDown(Iter > >&, const TObject&) [with TIndex = Index > >; TSpec = Preorder; TObject = char [5]]' + 1985 | return _goDownObject(it, obj, typename IsSequence::Type()); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:12:11: required from here + 12 | goDown(it, "ISSI"); + | ~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1898:23: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 1898 | value(it) = nodeDesc; + | ~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyPush(Iter >, VSTree > >&) [with TText = String >; TIndexSpec = void; TSpec = Preorder]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1897:25: required from 'bool seqan::_goDownChar(Iter > >&, TValue) [with TIndex = Index > >; TSpec = Preorder; TValue = char]' + 1897 | _historyPush(it); + | ~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1928:27: required from 'bool seqan::_goDownString(Iter > >&, const TString&, TSize&) [with TIndex = Index > >; TSpec = Preorder; TString = char [5]; TSize = long unsigned int]' + 1928 | while (_goDownChar(node, *p_begin)) + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1974:29: required from 'bool seqan::_goDownObject(Iter > >&, const TObject&, True) [with TIndex = Index > >; TSpec = Preorder; TObject = char [5]]' + 1974 | return _goDownString(it, obj, dummy); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1985:29: required from 'bool seqan::goDown(Iter > >&, const TObject&) [with TIndex = Index > >; TSpec = Preorder; TObject = char [5]]' + 1985 | return _goDownObject(it, obj, typename IsSequence::Type()); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:12:11: required from here + 12 | goDown(it, "ISSI"); + | ~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1751:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 1751 | it._parentDesc = value(it); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 392 | return _beginDefault(me, tag_); + | ~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 515 | return begin(cont, Rooted()); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' + 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' + 789 | write(it, source); + | ~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:13:52: required from here + 13 | std::cout << "The string " << representative(it) << " occurs " << range(it).i2 - range(it).i1 << + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 351 | return TIterator(me, begin(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' + 116 | Iter(typename Parameter_::Type container_, TIterator it_) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' + 117 | : data_container(_toPointer(container_)), + | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: required from 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]' + 351 | return TIterator(me, begin(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 392 | return _beginDefault(me, tag_); + | ~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 515 | return begin(cont, Rooted()); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' + 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' + 789 | write(it, source); + | ~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:13:52: required from here + 13 | std::cout << "The string " << representative(it) << " occurs " << range(it).i2 - range(it).i1 << + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/counting.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/counting.cpp:2: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -157386,137 +157553,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index > >; TSpec = Preorder]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = String >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' - 1491 | _historyClear(it); - | ~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:18:11: required from here - 18 | goRoot(it); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 1731 | it._parentDesc = value(it); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:137: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index > >; TSpec = TopDown<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index > >; TSpec = TopDown<>]' - 2236 | _clear(it); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1492:14: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = String >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' - 1492 | clear(it); // start in root node with range (0,infty) - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:18:11: required from here - 18 | goRoot(it); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'bool seqan::_goDownChar(Iter > >&, TValue) [with TIndex = Index > >; TSpec = Preorder; TValue = char]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1928:27: required from 'bool seqan::_goDownString(Iter > >&, const TString&, TSize&) [with TIndex = Index > >; TSpec = Preorder; TString = char [5]; TSize = long unsigned int]' - 1928 | while (_goDownChar(node, *p_begin)) - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1974:29: required from 'bool seqan::_goDownObject(Iter > >&, const TObject&, True) [with TIndex = Index > >; TSpec = Preorder; TObject = char [5]]' - 1974 | return _goDownString(it, obj, dummy); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1985:29: required from 'bool seqan::goDown(Iter > >&, const TObject&) [with TIndex = Index > >; TSpec = Preorder; TObject = char [5]]' - 1985 | return _goDownObject(it, obj, typename IsSequence::Type()); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:12:11: required from here - 12 | goDown(it, "ISSI"); - | ~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1898:23: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 1898 | value(it) = nodeDesc; - | ~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyPush(Iter >, VSTree > >&) [with TText = String >; TIndexSpec = void; TSpec = Preorder]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1897:25: required from 'bool seqan::_goDownChar(Iter > >&, TValue) [with TIndex = Index > >; TSpec = Preorder; TValue = char]' - 1897 | _historyPush(it); - | ~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1928:27: required from 'bool seqan::_goDownString(Iter > >&, const TString&, TSize&) [with TIndex = Index > >; TSpec = Preorder; TString = char [5]; TSize = long unsigned int]' - 1928 | while (_goDownChar(node, *p_begin)) - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1974:29: required from 'bool seqan::_goDownObject(Iter > >&, const TObject&, True) [with TIndex = Index > >; TSpec = Preorder; TObject = char [5]]' - 1974 | return _goDownString(it, obj, dummy); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1985:29: required from 'bool seqan::goDown(Iter > >&, const TObject&) [with TIndex = Index > >; TSpec = Preorder; TObject = char [5]]' - 1985 | return _goDownObject(it, obj, typename IsSequence::Type()); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:12:11: required from here - 12 | goDown(it, "ISSI"); - | ~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1751:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 1751 | it._parentDesc = value(it); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 392 | return _beginDefault(me, tag_); - | ~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 515 | return begin(cont, Rooted()); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' - 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' - 789 | write(it, source); - | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:13:52: required from here - 13 | std::cout << "The string " << representative(it) << " occurs " << range(it).i2 - range(it).i1 << - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 351 | return TIterator(me, begin(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' - 116 | Iter(typename Parameter_::Type container_, TIterator it_) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' - 117 | : data_container(_toPointer(container_)), - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: required from 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]' - 351 | return TIterator(me, begin(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 392 | return _beginDefault(me, tag_); - | ~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 515 | return begin(cont, Rooted()); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' - 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' - 789 | write(it, source); - | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:13:52: required from here - 13 | std::cout << "The string " << representative(it) << " occurs " << range(it).i2 - range(it).i1 << - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -157654,112 +157690,17 @@ | ^~~~~~~~ [ 38%] Linking CXX executable ../bin/demo_dox_index_begin_range_goDown_representative_repLength cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/link.txt --verbose=1 -[ 38%] Linking CXX executable ../bin/demo_dox_index_counting -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_counting.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/link.d CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o -o ../bin/demo_dox_index_begin_range_goDown_representative_repLength -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_counting.dir/link.d CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o -o ../bin/demo_dox_index_counting -lrt -lz -lbz2 [ 38%] Built target demo_dox_index_begin_range_goDown_representative_repLength -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_index_find_repeats.dir/build.make demos/CMakeFiles/demo_dox_index_find_repeats.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_find_repeats.dir/DependInfo.cmake "--color=" -[ 38%] Built target demo_dox_index_counting -make -f demos/CMakeFiles/demo_dox_index_finder.dir/build.make demos/CMakeFiles/demo_dox_index_finder.dir/depend make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_index_find_repeats.dir/build.make demos/CMakeFiles/demo_dox_index_find_repeats.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_finder.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 38%] Building CXX object demos/CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o -MF CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o.d -o CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/find_repeats.cpp -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_finder.dir/build.make demos/CMakeFiles/demo_dox_index_finder.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 38%] Building CXX object demos/CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o -MF CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o.d -o CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/finder.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/finder.cpp:1: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/bits/stl_tree.h:67, - from /usr/include/c++/15/map:64, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:41: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -157838,13 +157779,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -157852,63 +157786,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -157973,6 +157850,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 38%] Linking CXX executable ../bin/demo_dox_index_counting +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_counting.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_counting.dir/link.d CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o -o ../bin/demo_dox_index_counting -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 38%] Built target demo_dox_index_counting +make -f demos/CMakeFiles/demo_dox_index_finder.dir/build.make demos/CMakeFiles/demo_dox_index_finder.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_finder.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_finder.dir/build.make demos/CMakeFiles/demo_dox_index_finder.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 38%] Building CXX object demos/CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o -MF CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o.d -o CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/finder.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -158114,256 +158004,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 110 | public std::binary_function < SkewDCStream, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 143 | public std::binary_function < SkewDCStream >, Pack> >, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 99 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 118 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 132 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 175 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 185 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | struct _skew7NCompMulti : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 97 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 141 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 59 | struct _mapInverse : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 164 | struct _mapInverseMulti : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 666 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 714 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 782 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 851 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 885 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 933 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1814 | struct _qgramComp : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1833 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 46 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 85 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 98 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 112 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 127 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 110 | public std::binary_function < SkewDCStream, @@ -158481,41 +158121,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:72, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h: In instantiation of 'typename seqan::DisableIf > >::Type seqan::assign(TTarget&, TSource&) [with TTarget = Index > >; TSource = Index > >; typename DisableIf > >::Type = void]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:645:15: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Index > >; TValue2 = Index > >]' - 645 | assign(_dataValue(me), value_); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:594:19: required from 'void seqan::create(Holder >&) [with TValue = Index > >]' - 594 | create(me, _dataValue(me)); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:863:15: required from 'typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index > >; typename Reference > >::Type = Index > >&]' - 863 | create(me); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h:115:21: required from 'typename seqan::Parameter_ >::Type seqan::container(Finder, TSpecFinder>&) [with TText = String >; TSpec = IndexEsa<>; TSpecFinder = const Tag; typename Parameter_ >::Type = Index > >&]' - 115 | return value(me.index); - | ~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_base.h:904:21: required from 'typename seqan::Parameter_::Type>::Type seqan::haystack(TObject&) [with TObject = Finder > > >; typename Parameter_::Type>::Type = Index > >&; typename Haystack::Type = Index > >]' - 904 | return container(obj); - | ~~~~~~~~~^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index_esa.h:59:46: required from 'void seqan::_findFirstIndex(Finder, TSpecFinder>&, const TPattern&, FinderMlr) [with TText = String >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = char [3]; FinderMlr = const Tag]' - 59 | Index &index = haystack(finder); - | ~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h:275:28: required from 'bool seqan::find(Finder, TSpecFinder>&, const TPattern&) [with TText = String >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = char [3]]' - 275 | _findFirstIndex(finder, needle(pattern), TSpecFinder()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/finder.cpp:14:16: required from here - 14 | while (find(finder, "to")) - | ~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h:110:12: warning: implicitly-declared 'seqan::Index > >& seqan::Index > >::operator=(const seqan::Index > >&)' is deprecated [-Wdeprecated-copy] - 110 | target = source; - | ~~~~~~~^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:137: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:429:9: note: because 'seqan::Index > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::String >; TSpec = void]' - 429 | Index(Index const &other): - | ^~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, @@ -158773,6 +158378,437 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/finder.cpp:1: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/bits/stl_tree.h:67, + from /usr/include/c++/15/map:64, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:41: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 666 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 714 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 782 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 851 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 885 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 933 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1814 | struct _qgramComp : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1833 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 46 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 85 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 98 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 112 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 127 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 110 | public std::binary_function < SkewDCStream, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 143 | public std::binary_function < SkewDCStream >, Pack> >, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 99 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 118 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 132 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 175 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 185 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | struct _skew7NCompMulti : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 97 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 141 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 59 | struct _mapInverse : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 164 | struct _mapInverseMulti : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:72, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h: In instantiation of 'typename seqan::DisableIf > >::Type seqan::assign(TTarget&, TSource&) [with TTarget = Index > >; TSource = Index > >; typename DisableIf > >::Type = void]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:645:15: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Index > >; TValue2 = Index > >]' + 645 | assign(_dataValue(me), value_); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:594:19: required from 'void seqan::create(Holder >&) [with TValue = Index > >]' + 594 | create(me, _dataValue(me)); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:863:15: required from 'typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index > >; typename Reference > >::Type = Index > >&]' + 863 | create(me); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h:115:21: required from 'typename seqan::Parameter_ >::Type seqan::container(Finder, TSpecFinder>&) [with TText = String >; TSpec = IndexEsa<>; TSpecFinder = const Tag; typename Parameter_ >::Type = Index > >&]' + 115 | return value(me.index); + | ~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_base.h:904:21: required from 'typename seqan::Parameter_::Type>::Type seqan::haystack(TObject&) [with TObject = Finder > > >; typename Parameter_::Type>::Type = Index > >&; typename Haystack::Type = Index > >]' + 904 | return container(obj); + | ~~~~~~~~~^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index_esa.h:59:46: required from 'void seqan::_findFirstIndex(Finder, TSpecFinder>&, const TPattern&, FinderMlr) [with TText = String >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = char [3]; FinderMlr = const Tag]' + 59 | Index &index = haystack(finder); + | ~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h:275:28: required from 'bool seqan::find(Finder, TSpecFinder>&, const TPattern&) [with TText = String >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = char [3]]' + 275 | _findFirstIndex(finder, needle(pattern), TSpecFinder()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/finder.cpp:14:16: required from here + 14 | while (find(finder, "to")) + | ~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h:110:12: warning: implicitly-declared 'seqan::Index > >& seqan::Index > >::operator=(const seqan::Index > >&)' is deprecated [-Wdeprecated-copy] + 110 | target = source; + | ~~~~~~~^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:137: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:429:9: note: because 'seqan::Index > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::String >; TSpec = void]' + 429 | Index(Index const &other): + | ^~~~~ [ 38%] Linking CXX executable ../bin/demo_dox_index_finder cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_finder.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_finder.dir/link.d CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o -o ../bin/demo_dox_index_finder -lrt -lz -lbz2 @@ -158868,6 +158904,13 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/find_repeats.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -159260,13 +159303,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' 222 | VertexEsa(VertexEsa const &other): | ^~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/find_repeats.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ +[ 38%] Linking CXX executable ../bin/demo_dox_index_find_repeats +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_find_repeats.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_find_repeats.dir/link.d CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o -o ../bin/demo_dox_index_find_repeats -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 38%] Built target demo_dox_index_find_repeats +make -f demos/CMakeFiles/demo_dox_index_iterator.dir/build.make demos/CMakeFiles/demo_dox_index_iterator.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_iterator.dir/build.make demos/CMakeFiles/demo_dox_index_iterator.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 38%] Building CXX object demos/CMakeFiles/demo_dox_index_iterator.dir/dox/index/iterator.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_iterator.dir/dox/index/iterator.cpp.o -MF CMakeFiles/demo_dox_index_iterator.dir/dox/index/iterator.cpp.o.d -o CMakeFiles/demo_dox_index_iterator.dir/dox/index/iterator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/iterator.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -160201,19 +160250,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -[ 38%] Linking CXX executable ../bin/demo_dox_index_find_repeats -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_find_repeats.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_find_repeats.dir/link.d CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o -o ../bin/demo_dox_index_find_repeats -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 38%] Built target demo_dox_index_find_repeats -make -f demos/CMakeFiles/demo_dox_index_iterator.dir/build.make demos/CMakeFiles/demo_dox_index_iterator.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_iterator.dir/build.make demos/CMakeFiles/demo_dox_index_iterator.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 38%] Building CXX object demos/CMakeFiles/demo_dox_index_iterator.dir/dox/index/iterator.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_iterator.dir/dox/index/iterator.cpp.o -MF CMakeFiles/demo_dox_index_iterator.dir/dox/index/iterator.cpp.o.d -o CMakeFiles/demo_dox_index_iterator.dir/dox/index/iterator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/iterator.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -166775,6 +166811,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 39%] Building CXX object demos/CMakeFiles/demo_dox_index_open_save.dir/dox/index/open_save.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_open_save.dir/dox/index/open_save.cpp.o -MF CMakeFiles/demo_dox_index_open_save.dir/dox/index/open_save.cpp.o.d -o CMakeFiles/demo_dox_index_open_save.dir/dox/index/open_save.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/open_save.cpp +[ 39%] Linking CXX executable ../bin/demo_dox_index_mummy +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_mummy.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_mummy.dir/link.d CMakeFiles/demo_dox_index_mummy.dir/dox/index/mummy.cpp.o -o ../bin/demo_dox_index_mummy -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 39%] Built target demo_dox_index_mummy +make -f demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build.make demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build.make demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 40%] Building CXX object demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/dox/index/shape_hash_init.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/dox/index/shape_hash_init.cpp.o -MF CMakeFiles/demo_dox_index_shape_hash_init.dir/dox/index/shape_hash_init.cpp.o.d -o CMakeFiles/demo_dox_index_shape_hash_init.dir/dox/index/shape_hash_init.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/shape_hash_init.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -166921,6 +166970,152 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/shape_hash_init.cpp:2: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/bits/stl_tree.h:67, + from /usr/include/c++/15/map:64, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/shape_hash_init.cpp:1: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -166937,8 +167132,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 39%] Linking CXX executable ../bin/demo_dox_index_mummy -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_mummy.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -167166,6 +167359,15 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -167173,17 +167375,260 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_mummy.dir/link.d CMakeFiles/demo_dox_index_mummy.dir/dox/index/mummy.cpp.o -o ../bin/demo_dox_index_mummy -lrt -lz -lbz2 +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 666 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 714 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 782 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 851 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 885 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 933 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1814 | struct _qgramComp : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1833 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 46 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 85 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 98 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 112 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 127 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 110 | public std::binary_function < SkewDCStream, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 143 | public std::binary_function < SkewDCStream >, Pack> >, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 99 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 118 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 132 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 175 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 185 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | struct _skew7NCompMulti : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 97 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 141 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 59 | struct _mapInverse : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 164 | struct _mapInverseMulti : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +[ 40%] Linking CXX executable ../bin/demo_dox_index_shape_hash_init +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_shape_hash_init.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_shape_hash_init.dir/link.d CMakeFiles/demo_dox_index_shape_hash_init.dir/dox/index/shape_hash_init.cpp.o -o ../bin/demo_dox_index_shape_hash_init -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 39%] Built target demo_dox_index_mummy -make -f demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build.make demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/depend +[ 40%] Built target demo_dox_index_shape_hash_init +make -f demos/CMakeFiles/demo_dox_index_sufarray.dir/build.make demos/CMakeFiles/demo_dox_index_sufarray.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_sufarray.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build.make demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build +make -f demos/CMakeFiles/demo_dox_index_sufarray.dir/build.make demos/CMakeFiles/demo_dox_index_sufarray.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 40%] Building CXX object demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/dox/index/shape_hash_init.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/dox/index/shape_hash_init.cpp.o -MF CMakeFiles/demo_dox_index_shape_hash_init.dir/dox/index/shape_hash_init.cpp.o.d -o CMakeFiles/demo_dox_index_shape_hash_init.dir/dox/index/shape_hash_init.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/shape_hash_init.cpp +[ 40%] Building CXX object demos/CMakeFiles/demo_dox_index_sufarray.dir/dox/index/sufarray.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_sufarray.dir/dox/index/sufarray.cpp.o -MF CMakeFiles/demo_dox_index_sufarray.dir/dox/index/sufarray.cpp.o.d -o CMakeFiles/demo_dox_index_sufarray.dir/dox/index/sufarray.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/sufarray.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -167522,88 +167967,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/shape_hash_init.cpp:2: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/bits/stl_tree.h:67, - from /usr/include/c++/15/map:64, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/shape_hash_init.cpp:1: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' 881 | writer->push(Val_); @@ -167809,29 +168172,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]' 622 | if (handler1) handler1->push(Val_); @@ -167870,9 +168210,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:311:44: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] 311 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ @@ -167917,44 +168254,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > >]' 881 | writer->push(Val_); @@ -168237,269 +168536,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 666 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 714 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 782 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 851 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 885 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 933 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1814 | struct _qgramComp : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1833 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 46 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 85 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 98 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 112 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 127 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 110 | public std::binary_function < SkewDCStream, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 143 | public std::binary_function < SkewDCStream >, Pack> >, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 99 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 118 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 132 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 175 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 185 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | struct _skew7NCompMulti : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 97 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 141 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 59 | struct _mapInverse : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 164 | struct _mapInverseMulti : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -[ 40%] Linking CXX executable ../bin/demo_dox_index_shape_hash_init -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_shape_hash_init.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_shape_hash_init.dir/link.d CMakeFiles/demo_dox_index_shape_hash_init.dir/dox/index/shape_hash_init.cpp.o -o ../bin/demo_dox_index_shape_hash_init -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 40%] Built target demo_dox_index_shape_hash_init -make -f demos/CMakeFiles/demo_dox_index_sufarray.dir/build.make demos/CMakeFiles/demo_dox_index_sufarray.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_sufarray.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_sufarray.dir/build.make demos/CMakeFiles/demo_dox_index_sufarray.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 40%] Building CXX object demos/CMakeFiles/demo_dox_index_sufarray.dir/dox/index/sufarray.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_sufarray.dir/dox/index/sufarray.cpp.o -MF CMakeFiles/demo_dox_index_sufarray.dir/dox/index/sufarray.cpp.o.d -o CMakeFiles/demo_dox_index_sufarray.dir/dox/index/sufarray.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/sufarray.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -170072,11 +170108,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 41%] Building CXX object demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/dox/misc/name_store_cache.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/dox/misc/name_store_cache.cpp.o -MF CMakeFiles/demo_dox_misc_name_store_cache.dir/dox/misc/name_store_cache.cpp.o.d -o CMakeFiles/demo_dox_misc_name_store_cache.dir/dox/misc/name_store_cache.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/name_store_cache.cpp -[ 41%] Linking CXX executable ../bin/demo_dox_misc_name_store_cache -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_misc_name_store_cache.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_misc_name_store_cache.dir/link.d CMakeFiles/demo_dox_misc_name_store_cache.dir/dox/misc/name_store_cache.cpp.o -o ../bin/demo_dox_misc_name_store_cache -lrt -lz -lbz2 +[ 41%] Linking CXX executable ../bin/demo_dox_misc_interval_tree_example +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_misc_interval_tree_example.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_misc_interval_tree_example.dir/link.d CMakeFiles/demo_dox_misc_interval_tree_example.dir/dox/misc/interval_tree_example.cpp.o -o ../bin/demo_dox_misc_interval_tree_example -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 41%] Built target demo_dox_misc_name_store_cache +[ 41%] Built target demo_dox_misc_interval_tree_example make -f demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/build.make demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/DependInfo.cmake "--color=" @@ -170085,11 +170121,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 41%] Building CXX object demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/dox/modifier/cyclic_shape.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/dox/modifier/cyclic_shape.cpp.o -MF CMakeFiles/demo_dox_modifier_cyclic_shape.dir/dox/modifier/cyclic_shape.cpp.o.d -o CMakeFiles/demo_dox_modifier_cyclic_shape.dir/dox/modifier/cyclic_shape.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/cyclic_shape.cpp -[ 41%] Linking CXX executable ../bin/demo_dox_misc_interval_tree_example -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_misc_interval_tree_example.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_misc_interval_tree_example.dir/link.d CMakeFiles/demo_dox_misc_interval_tree_example.dir/dox/misc/interval_tree_example.cpp.o -o ../bin/demo_dox_misc_interval_tree_example -lrt -lz -lbz2 +[ 41%] Linking CXX executable ../bin/demo_dox_misc_name_store_cache +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_misc_name_store_cache.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_misc_name_store_cache.dir/link.d CMakeFiles/demo_dox_misc_name_store_cache.dir/dox/misc/name_store_cache.cpp.o -o ../bin/demo_dox_misc_name_store_cache -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 41%] Built target demo_dox_misc_interval_tree_example +[ 41%] Built target demo_dox_misc_name_store_cache make -f demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/build.make demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/DependInfo.cmake "--color=" @@ -170482,6 +170518,17 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_modifier_modified_string.dir/dox/modifier/modified_string.cpp.o -MF CMakeFiles/demo_dox_modifier_modified_string.dir/dox/modifier/modified_string.cpp.o.d -o CMakeFiles/demo_dox_modifier_modified_string.dir/dox/modifier/modified_string.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string.cpp [ 41%] Linking CXX executable ../bin/demo_dox_modifier_cyclic_shape_snippets cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/link.d CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/dox/modifier/cyclic_shape_snippets.cpp.o -o ../bin/demo_dox_modifier_cyclic_shape_snippets -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 41%] Built target demo_dox_modifier_cyclic_shape_snippets +make -f demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 41%] Building CXX object demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o -MF CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o.d -o CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_mod_view.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -170577,17 +170624,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/link.d CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/dox/modifier/cyclic_shape_snippets.cpp.o -o ../bin/demo_dox_modifier_cyclic_shape_snippets -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 41%] Built target demo_dox_modifier_cyclic_shape_snippets -make -f demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 41%] Building CXX object demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o -MF CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o.d -o CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_mod_view.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -170699,6 +170735,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 41%] Building CXX object demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/dox/modifier/modified_string_nested.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/dox/modifier/modified_string_nested.cpp.o -MF CMakeFiles/demo_dox_modifier_modified_string_nested.dir/dox/modifier/modified_string_nested.cpp.o.d -o CMakeFiles/demo_dox_modifier_modified_string_nested.dir/dox/modifier/modified_string_nested.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_nested.cpp +[ 41%] Linking CXX executable ../bin/demo_dox_modifier_modified_string_mod_view +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/link.d CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o -o ../bin/demo_dox_modifier_modified_string_mod_view -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 41%] Built target demo_dox_modifier_modified_string_mod_view +make -f demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_queue_example.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_queue_example.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 41%] Building CXX object demos/CMakeFiles/demo_dox_parallel_queue_example.dir/dox/parallel/queue_example.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_parallel_queue_example.dir/dox/parallel/queue_example.cpp.o -MF CMakeFiles/demo_dox_parallel_queue_example.dir/dox/parallel/queue_example.cpp.o.d -o CMakeFiles/demo_dox_parallel_queue_example.dir/dox/parallel/queue_example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/queue_example.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_nested.cpp:2: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -170791,21 +170840,10 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 41%] Linking CXX executable ../bin/demo_dox_modifier_modified_string_mod_view -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/link.d CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o -o ../bin/demo_dox_modifier_modified_string_mod_view -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 41%] Built target demo_dox_modifier_modified_string_mod_view -make -f demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_queue_example.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_queue_example.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 41%] Building CXX object demos/CMakeFiles/demo_dox_parallel_queue_example.dir/dox/parallel/queue_example.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_parallel_queue_example.dir/dox/parallel/queue_example.cpp.o -MF CMakeFiles/demo_dox_parallel_queue_example.dir/dox/parallel/queue_example.cpp.o.d -o CMakeFiles/demo_dox_parallel_queue_example.dir/dox/parallel/queue_example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/queue_example.cpp [ 42%] Linking CXX executable ../bin/demo_dox_modifier_modified_string_nested cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_modifier_modified_string_nested.dir/link.txt --verbose=1 +[ 42%] Linking CXX executable ../bin/demo_dox_parallel_queue_example +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_parallel_queue_example.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_modifier_modified_string_nested.dir/link.d CMakeFiles/demo_dox_modifier_modified_string_nested.dir/dox/modifier/modified_string_nested.cpp.o -o ../bin/demo_dox_modifier_modified_string_nested -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 42%] Built target demo_dox_modifier_modified_string_nested @@ -170814,14 +170852,12 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 42%] Building CXX object demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o -MF CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o.d -o CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/splitter_example.cpp -[ 42%] Linking CXX executable ../bin/demo_dox_parallel_queue_example -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_parallel_queue_example.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_parallel_queue_example.dir/link.d CMakeFiles/demo_dox_parallel_queue_example.dir/dox/parallel/queue_example.cpp.o -o ../bin/demo_dox_parallel_queue_example -lrt -lz -lbz2 +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 42%] Built target demo_dox_parallel_queue_example +[ 42%] Building CXX object demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o -MF CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o.d -o CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/splitter_example.cpp make -f demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build.make demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/DependInfo.cmake "--color=" @@ -170916,8 +170952,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 42%] Linking CXX executable ../bin/demo_dox_parallel_splitter_example -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_parallel_splitter_example.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public std::unary_function @@ -170981,6 +171015,8 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 42%] Linking CXX executable ../bin/demo_dox_parallel_splitter_example +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_parallel_splitter_example.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_parallel_splitter_example.dir/link.d CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o -o ../bin/demo_dox_parallel_splitter_example -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 42%] Built target demo_dox_parallel_splitter_example @@ -170994,6 +171030,17 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o -MF CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o.d -o CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/score/score.cpp [ 42%] Linking CXX executable ../bin/demo_dox_pipe_pool_sorter cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_pipe_pool_sorter.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_pipe_pool_sorter.dir/link.d CMakeFiles/demo_dox_pipe_pool_sorter.dir/dox/pipe/pool_sorter.cpp.o -o ../bin/demo_dox_pipe_pool_sorter -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 42%] Built target demo_dox_pipe_pool_sorter +make -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 42%] Building CXX object demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o -MF CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o.d -o CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_add_seed.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -171082,9 +171129,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_pipe_pool_sorter.dir/link.d CMakeFiles/demo_dox_pipe_pool_sorter.dir/dox/pipe/pool_sorter.cpp.o -o ../bin/demo_dox_pipe_pool_sorter -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 42%] Built target demo_dox_pipe_pool_sorter In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -171092,14 +171136,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -make -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 42%] Building CXX object demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o -MF CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o.d -o CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_add_seed.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -171549,8 +171585,6 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/link.d CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o -o ../bin/demo_dox_seeds_seeds_add_seed -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 42%] Linking CXX executable ../bin/demo_dox_score_score -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_score_score.dir/link.txt --verbose=1 [ 42%] Built target demo_dox_seeds_seeds_add_seed make -f demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -171560,6 +171594,8 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 42%] Building CXX object demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/dox/seeds/seeds_chaining.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/dox/seeds/seeds_chaining.cpp.o -MF CMakeFiles/demo_dox_seeds_seeds_chaining.dir/dox/seeds/seeds_chaining.cpp.o.d -o CMakeFiles/demo_dox_seeds_seeds_chaining.dir/dox/seeds/seeds_chaining.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_chaining.cpp +[ 42%] Linking CXX executable ../bin/demo_dox_score_score +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_score_score.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_score_score.dir/link.d CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o -o ../bin/demo_dox_score_score -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 42%] Built target demo_dox_score_score @@ -171722,157 +171758,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_extension.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_extension.cpp:2: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -171928,15 +171813,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 782 | public std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ @@ -171973,13 +171849,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -172132,6 +172001,194 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_extension.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_extension.cpp:2: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -172345,13 +172402,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public std::unary_function { @@ -172387,38 +172437,24 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -[ 42%] Linking CXX executable ../bin/demo_dox_seeds_seeds_extension -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_seeds_seeds_extension.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_seeds_seeds_extension.dir/link.d CMakeFiles/demo_dox_seeds_seeds_extension.dir/dox/seeds/seeds_extension.cpp.o -o ../bin/demo_dox_seeds_seeds_extension -lrt -lz -lbz2 +[ 43%] Linking CXX executable ../bin/demo_dox_seeds_seeds_chaining +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_seeds_seeds_chaining.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_seeds_seeds_chaining.dir/link.d CMakeFiles/demo_dox_seeds_seeds_chaining.dir/dox/seeds/seeds_chaining.cpp.o -o ../bin/demo_dox_seeds_seeds_chaining -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 42%] Built target demo_dox_seeds_seeds_extension +[ 43%] Built target demo_dox_seeds_seeds_chaining make -f demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build.make demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build.make demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 42%] Building CXX object demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/dox/seq_io/fai_index_example.cpp.o +[ 43%] Building CXX object demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/dox/seq_io/fai_index_example.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/dox/seq_io/fai_index_example.cpp.o -MF CMakeFiles/demo_dox_seq_io_fai_index_example.dir/dox/seq_io/fai_index_example.cpp.o.d -o CMakeFiles/demo_dox_seq_io_fai_index_example.dir/dox/seq_io/fai_index_example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seq_io/fai_index_example.cpp -[ 43%] Linking CXX executable ../bin/demo_dox_seeds_seeds_chaining -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_seeds_seeds_chaining.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_seeds_seeds_chaining.dir/link.d CMakeFiles/demo_dox_seeds_seeds_chaining.dir/dox/seeds/seeds_chaining.cpp.o -o ../bin/demo_dox_seeds_seeds_chaining -lrt -lz -lbz2 +[ 43%] Linking CXX executable ../bin/demo_dox_seeds_seeds_extension +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_seeds_seeds_extension.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_seeds_seeds_extension.dir/link.d CMakeFiles/demo_dox_seeds_seeds_extension.dir/dox/seeds/seeds_extension.cpp.o -o ../bin/demo_dox_seeds_seeds_extension -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 43%] Built target demo_dox_seeds_seeds_chaining +[ 43%] Built target demo_dox_seeds_seeds_extension make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/DependInfo.cmake "--color=" @@ -172644,8 +172680,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 43%] Linking CXX executable ../bin/demo_dox_sequence_UNUSED_infix -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -172659,17 +172693,8 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/link.d CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/dox/sequence/UNUSED_infix.cpp.o -o ../bin/demo_dox_sequence_UNUSED_infix -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 43%] Built target demo_dox_sequence_UNUSED_infix -make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 43%] Building CXX object demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o -MF CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o.d -o CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/UNUSED_prefix.cpp +[ 43%] Linking CXX executable ../bin/demo_dox_sequence_UNUSED_infix +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -172709,6 +172734,8 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/link.d CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/dox/sequence/UNUSED_infix.cpp.o -o ../bin/demo_dox_sequence_UNUSED_infix -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 2155 | public std::binary_function< @@ -172716,6 +172743,15 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 43%] Built target demo_dox_sequence_UNUSED_infix +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 43%] Building CXX object demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o -MF CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o.d -o CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/UNUSED_prefix.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -172998,16 +173034,16 @@ | ^~~~~~~~~~~~~~ [ 43%] Linking CXX executable ../bin/demo_dox_sequence_UNUSED_suffix cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/link.txt --verbose=1 +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/link.d CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/dox/sequence/UNUSED_suffix.cpp.o -o ../bin/demo_dox_sequence_UNUSED_suffix -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 43%] Built target demo_dox_sequence_UNUSED_suffix make -f demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build.make demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/DependInfo.cmake "--color=" -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build.make demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -173265,11 +173301,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_suffix.h:129:5: note: because 'seqan::Segment >, seqan::SuffixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]' 129 | operator = (Segment const & source) | ^~~~~~~~ -[ 44%] Linking CXX executable ../bin/demo_dox_sequence_container_view_zip -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_container_view_zip.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_container_view_zip.dir/link.d CMakeFiles/demo_dox_sequence_container_view_zip.dir/dox/sequence/container_view_zip.cpp.o -o ../bin/demo_dox_sequence_container_view_zip -lrt -lz -lbz2 +[ 44%] Linking CXX executable ../bin/demo_dox_sequence_segment +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_segment.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_segment.dir/link.d CMakeFiles/demo_dox_sequence_segment.dir/dox/sequence/segment.cpp.o -o ../bin/demo_dox_sequence_segment -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 44%] Built target demo_dox_sequence_container_view_zip +[ 44%] Built target demo_dox_sequence_segment make -f demos/CMakeFiles/demo_dox_sequence_string.dir/build.make demos/CMakeFiles/demo_dox_sequence_string.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string.dir/DependInfo.cmake "--color=" @@ -173278,11 +173314,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 44%] Building CXX object demos/CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o -MF CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o.d -o CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/string.cpp -[ 44%] Linking CXX executable ../bin/demo_dox_sequence_segment -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_segment.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_segment.dir/link.d CMakeFiles/demo_dox_sequence_segment.dir/dox/sequence/segment.cpp.o -o ../bin/demo_dox_sequence_segment -lrt -lz -lbz2 +[ 44%] Linking CXX executable ../bin/demo_dox_sequence_container_view_zip +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_container_view_zip.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_container_view_zip.dir/link.d CMakeFiles/demo_dox_sequence_container_view_zip.dir/dox/sequence/container_view_zip.cpp.o -o ../bin/demo_dox_sequence_container_view_zip -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 44%] Built target demo_dox_sequence_segment +[ 44%] Built target demo_dox_sequence_container_view_zip make -f demos/CMakeFiles/demo_dox_sequence_string2.dir/build.make demos/CMakeFiles/demo_dox_sequence_string2.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string2.dir/DependInfo.cmake "--color=" @@ -173481,17 +173517,17 @@ make -f demos/CMakeFiles/demo_dox_sequence_stringset.dir/build.make demos/CMakeFiles/demo_dox_sequence_stringset.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_stringset.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_string.dir/link.d CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o -o ../bin/demo_dox_sequence_string -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_sequence_stringset.dir/build.make demos/CMakeFiles/demo_dox_sequence_stringset.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 44%] Building CXX object demos/CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o -MF CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o.d -o CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/stringset.cpp -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_string.dir/link.d CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o -o ../bin/demo_dox_sequence_string -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 44%] Built target demo_dox_sequence_string make -f demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/DependInfo.cmake "--color=" +[ 44%] Building CXX object demos/CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o -MF CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o.d -o CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/stringset.cpp make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -173760,6 +173796,8 @@ | ^~~~~~~~~~~~~~ [ 44%] Linking CXX executable ../bin/demo_dox_sequence_stringset cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_stringset.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_stringset.dir/link.d CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o -o ../bin/demo_dox_sequence_stringset -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -173786,6 +173824,15 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 44%] Built target demo_dox_sequence_stringset +make -f demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 44%] Building CXX object demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o -MF CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o.d -o CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/load_markov_model.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -173987,15 +174034,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_stringset.dir/link.d CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o -o ../bin/demo_dox_sequence_stringset -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 44%] Built target demo_dox_sequence_stringset -make -f demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -174003,8 +174041,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 44%] Building CXX object demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o -MF CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o.d -o CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/load_markov_model.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/statistics.h:40, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/build_markov_model.cpp:5: @@ -174971,13 +175007,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -175126,6 +175155,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' 88 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -175619,6 +175655,12 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char [2]]', inlined from 'int main()' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/stream/lexical_cast.cpp:42:29: @@ -175645,12 +175687,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 45%] Building CXX object demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/howto/align_gaps_clipping.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/howto/align_gaps_clipping.cpp.o -MF CMakeFiles/demo_howto_align_gaps_clipping.dir/howto/align_gaps_clipping.cpp.o.d -o CMakeFiles/demo_howto_align_gaps_clipping.dir/howto/align_gaps_clipping.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/align_gaps_clipping.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -175908,84 +175944,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -176213,6 +176171,114 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, + inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, + inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -176383,36 +176449,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, - inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, - inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -176582,19 +176618,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 45%] Linking CXX executable ../bin/demo_howto_custom_file_endings -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_howto_custom_file_endings.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_howto_custom_file_endings.dir/link.d CMakeFiles/demo_howto_custom_file_endings.dir/howto/custom_file_endings.cpp.o -o ../bin/demo_howto_custom_file_endings -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 45%] Built target demo_howto_custom_file_endings -make -f demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build.make demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build.make demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 45%] Building CXX object demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/howto/filter_similar_sequences.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/howto/filter_similar_sequences.cpp.o -MF CMakeFiles/demo_howto_filter_similar_sequences.dir/howto/filter_similar_sequences.cpp.o.d -o CMakeFiles/demo_howto_filter_similar_sequences.dir/howto/filter_similar_sequences.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/filter_similar_sequences.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -176614,6 +176637,8 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 45%] Linking CXX executable ../bin/demo_howto_custom_file_endings +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_howto_custom_file_endings.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -176627,6 +176652,17 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_howto_custom_file_endings.dir/link.d CMakeFiles/demo_howto_custom_file_endings.dir/howto/custom_file_endings.cpp.o -o ../bin/demo_howto_custom_file_endings -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 45%] Built target demo_howto_custom_file_endings +make -f demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build.make demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build.make demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 45%] Building CXX object demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/howto/filter_similar_sequences.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/howto/filter_similar_sequences.cpp.o -MF CMakeFiles/demo_howto_filter_similar_sequences.dir/howto/filter_similar_sequences.cpp.o.d -o CMakeFiles/demo_howto_filter_similar_sequences.dir/howto/filter_similar_sequences.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/filter_similar_sequences.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -178043,8 +178079,6 @@ | ^~~~~~ [ 46%] Linking CXX executable ../bin/demo_howto_using_zip_iterator cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_howto_using_zip_iterator.dir/link.txt --verbose=1 -[ 46%] Linking CXX executable ../bin/demo_howto_scores_load_score -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_howto_scores_load_score.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_howto_using_zip_iterator.dir/link.d CMakeFiles/demo_howto_using_zip_iterator.dir/howto/using_zip_iterator.cpp.o -o ../bin/demo_howto_using_zip_iterator -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 46%] Built target demo_howto_using_zip_iterator @@ -178056,6 +178090,8 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 46%] Building CXX object demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o -MF CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o.d -o CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tabix_io/tabix_vcf.cpp +[ 46%] Linking CXX executable ../bin/demo_howto_scores_load_score +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_howto_scores_load_score.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_howto_scores_load_score.dir/link.d CMakeFiles/demo_howto_scores_load_score.dir/howto/scores/load_score.cpp.o -o ../bin/demo_howto_scores_load_score -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 46%] Built target demo_howto_scores_load_score @@ -178162,6 +178198,53 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tabix_io/tabix_vcf.cpp:18:14: required from here + 18 | if (!open(vcfFile, argv[1])) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tabix_io/tabix_vcf.cpp:2: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tabix_io/tabix_vcf.cpp:18:14: required from here + 18 | if (!open(vcfFile, argv[1])) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/base.cpp:2: @@ -178239,30 +178322,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tabix_io/tabix_vcf.cpp:18:14: required from here - 18 | if (!open(vcfFile, argv[1])) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tabix_io/tabix_vcf.cpp:2: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -178277,29 +178336,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tabix_io/tabix_vcf.cpp:18:14: required from here - 18 | if (!open(vcfFile, argv[1])) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -178497,24 +178533,24 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 46%] Linking CXX executable ../bin/demo_tutorial_a_first_example_basic_code -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/link.d CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/tutorial/a_first_example/basic_code.cpp.o -o ../bin/demo_tutorial_a_first_example_basic_code -lrt -lz -lbz2 +[ 46%] Linking CXX executable ../bin/demo_tabix_io_tabix_vcf +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tabix_io_tabix_vcf.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tabix_io_tabix_vcf.dir/link.d CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o -o ../bin/demo_tabix_io_tabix_vcf -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 46%] Built target demo_tutorial_a_first_example_basic_code +[ 46%] Built target demo_tabix_io_tabix_vcf make -f demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 46%] Linking CXX executable ../bin/demo_tutorial_a_first_example_basic_code +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/link.txt --verbose=1 [ 46%] Building CXX object demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/tutorial/a_first_example/basic_code_detailed.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/tutorial/a_first_example/basic_code_detailed.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/tutorial/a_first_example/basic_code_detailed.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/tutorial/a_first_example/basic_code_detailed.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code_detailed.cpp -[ 46%] Linking CXX executable ../bin/demo_tabix_io_tabix_vcf -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tabix_io_tabix_vcf.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tabix_io_tabix_vcf.dir/link.d CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o -o ../bin/demo_tabix_io_tabix_vcf -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/link.d CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/tutorial/a_first_example/basic_code.cpp.o -o ../bin/demo_tutorial_a_first_example_basic_code -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 46%] Built target demo_tabix_io_tabix_vcf +[ 46%] Built target demo_tutorial_a_first_example_basic_code make -f demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/DependInfo.cmake "--color=" @@ -178525,7 +178561,7 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/tutorial/a_first_example/code_encapsulation.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/tutorial/a_first_example/code_encapsulation.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/tutorial/a_first_example/code_encapsulation.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/code_encapsulation.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code_detailed.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/code_encapsulation.cpp:3: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -178536,7 +178572,7 @@ from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code_detailed.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/code_encapsulation.cpp:2: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -178607,16 +178643,9 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/code_encapsulation.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code_detailed.cpp:3: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -178627,7 +178656,7 @@ from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/code_encapsulation.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code_detailed.cpp:2: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -178705,6 +178734,13 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ [ 47%] Linking CXX executable ../bin/demo_tutorial_a_first_example_basic_code_detailed cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/link.d CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/tutorial/a_first_example/basic_code_detailed.cpp.o -o ../bin/demo_tutorial_a_first_example_basic_code_detailed -lrt -lz -lbz2 @@ -178726,13 +178762,13 @@ make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/DependInfo.cmake "--color=" +[ 47%] Linking CXX executable ../bin/demo_tutorial_a_first_example_code_encapsulation +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 47%] Building CXX object demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/tutorial/a_first_example/example_tags_for_print.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/tutorial/a_first_example/example_tags_for_print.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/tutorial/a_first_example/example_tags_for_print.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/tutorial/a_first_example/example_tags_for_print.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/example_tags_for_print.cpp -[ 47%] Linking CXX executable ../bin/demo_tutorial_a_first_example_code_encapsulation -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/link.d CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/tutorial/a_first_example/code_encapsulation.cpp.o -o ../bin/demo_tutorial_a_first_example_code_encapsulation -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 47%] Built target demo_tutorial_a_first_example_code_encapsulation @@ -178956,6 +178992,17 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/tutorial/a_first_example/solution_1.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/tutorial/a_first_example/solution_1.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/tutorial/a_first_example/solution_1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_1.cpp [ 47%] Linking CXX executable ../bin/demo_tutorial_a_first_example_final_result cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_final_result.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_final_result.dir/link.d CMakeFiles/demo_tutorial_a_first_example_final_result.dir/tutorial/a_first_example/final_result.cpp.o -o ../bin/demo_tutorial_a_first_example_final_result -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 47%] Built target demo_tutorial_a_first_example_final_result +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 48%] Building CXX object demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/tutorial/a_first_example/solution_2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/tutorial/a_first_example/solution_2.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/tutorial/a_first_example/solution_2.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/tutorial/a_first_example/solution_2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_1.cpp:2: @@ -179047,17 +179094,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_final_result.dir/link.d CMakeFiles/demo_tutorial_a_first_example_final_result.dir/tutorial/a_first_example/final_result.cpp.o -o ../bin/demo_tutorial_a_first_example_final_result -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 47%] Built target demo_tutorial_a_first_example_final_result -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 48%] Building CXX object demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/tutorial/a_first_example/solution_2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/tutorial/a_first_example/solution_2.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/tutorial/a_first_example/solution_2.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/tutorial/a_first_example/solution_2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_2.cpp [ 48%] Linking CXX executable ../bin/demo_tutorial_a_first_example_solution_1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/link.d CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/tutorial/a_first_example/solution_1.cpp.o -o ../bin/demo_tutorial_a_first_example_solution_1 -lrt -lz -lbz2 @@ -179790,6 +179826,48 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp:138:20: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] + 138 | it = begin(row1); + | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:86: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]' + 91 | Iter(Iter const & other) : + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp:139:21: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] + 139 | itEnd = end(row1); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]' + 91 | Iter(Iter const & other) : + | ^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align_assignment1.cpp:3: @@ -179874,14 +179952,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -179893,26 +179963,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -179928,20 +179978,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp:138:20: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] - 138 | it = begin(row1); - | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:86: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]' - 91 | Iter(Iter const & other) : - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp:139:21: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] - 139 | itEnd = end(row1); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]' - 91 | Iter(Iter const & other) : - | ^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -180227,28 +180263,28 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 50%] Linking CXX executable ../bin/demo_tutorial_alignment_graph_assignment1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/link.txt --verbose=1 [ 50%] Linking CXX executable ../bin/demo_tutorial_alignment_graph cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_graph.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/link.d CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/tutorial/alignment/graph_assignment1.cpp.o -o ../bin/demo_tutorial_alignment_graph_assignment1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_graph.dir/link.d CMakeFiles/demo_tutorial_alignment_graph.dir/tutorial/alignment/graph.cpp.o -o ../bin/demo_tutorial_alignment_graph -lrt -lz -lbz2 -[ 50%] Built target demo_tutorial_alignment_graph_assignment1 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 50%] Built target demo_tutorial_alignment_graph make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/DependInfo.cmake "--color=" -[ 50%] Built target demo_tutorial_alignment_graph -make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/depend make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 50%] Building CXX object demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/tutorial/alignment/scoring_scheme_affine_dgs.cpp.o -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 50%] Linking CXX executable ../bin/demo_tutorial_alignment_graph_assignment1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/link.txt --verbose=1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/tutorial/alignment/scoring_scheme_affine_dgs.cpp.o -MF CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/tutorial/alignment/scoring_scheme_affine_dgs.cpp.o.d -o CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/tutorial/alignment/scoring_scheme_affine_dgs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_affine_dgs.cpp +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/link.d CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/tutorial/alignment/graph_assignment1.cpp.o -o ../bin/demo_tutorial_alignment_graph_assignment1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 50%] Built target demo_tutorial_alignment_graph_assignment1 +make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 50%] Building CXX object demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/tutorial/alignment/scoring_scheme_matrix.cpp.o @@ -180348,21 +180384,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_matrix.cpp:3: @@ -180422,19 +180443,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 264 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ @@ -180499,11 +180507,39 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 50%] Linking CXX executable ../bin/demo_tutorial_alignment_scoring_scheme_affine_dgs -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/link.d CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/tutorial/alignment/scoring_scheme_affine_dgs.cpp.o -o ../bin/demo_tutorial_alignment_scoring_scheme_affine_dgs -lrt -lz -lbz2 +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +[ 50%] Linking CXX executable ../bin/demo_tutorial_alignment_scoring_scheme_matrix +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/link.d CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/tutorial/alignment/scoring_scheme_matrix.cpp.o -o ../bin/demo_tutorial_alignment_scoring_scheme_matrix -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 50%] Built target demo_tutorial_alignment_scoring_scheme_affine_dgs +[ 50%] Built target demo_tutorial_alignment_scoring_scheme_matrix make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/DependInfo.cmake "--color=" @@ -180512,11 +180548,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 50%] Building CXX object demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o -MF CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o.d -o CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_simple.cpp -[ 50%] Linking CXX executable ../bin/demo_tutorial_alignment_scoring_scheme_matrix -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/link.d CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/tutorial/alignment/scoring_scheme_matrix.cpp.o -o ../bin/demo_tutorial_alignment_scoring_scheme_matrix -lrt -lz -lbz2 +[ 50%] Linking CXX executable ../bin/demo_tutorial_alignment_scoring_scheme_affine_dgs +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/link.d CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/tutorial/alignment/scoring_scheme_affine_dgs.cpp.o -o ../bin/demo_tutorial_alignment_scoring_scheme_affine_dgs -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 50%] Built target demo_tutorial_alignment_scoring_scheme_matrix +[ 50%] Built target demo_tutorial_alignment_scoring_scheme_affine_dgs make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/DependInfo.cmake "--color=" @@ -180700,24 +180736,24 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 50%] Building CXX object demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/tutorial/alphabets/example_size.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/tutorial/alphabets/example_size.cpp.o -MF CMakeFiles/demo_tutorial_alphabets_example_size.dir/tutorial/alphabets/example_size.cpp.o.d -o CMakeFiles/demo_tutorial_alphabets_example_size.dir/tutorial/alphabets/example_size.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_size.cpp -[ 51%] Linking CXX executable ../bin/demo_tutorial_alignment_scoring_scheme_simple -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/link.txt --verbose=1 -[ 51%] Linking CXX executable ../bin/demo_tutorial_alphabets_example_size +[ 50%] Linking CXX executable ../bin/demo_tutorial_alphabets_example_size cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alphabets_example_size.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/link.d CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o -o ../bin/demo_tutorial_alignment_scoring_scheme_simple -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alphabets_example_size.dir/link.d CMakeFiles/demo_tutorial_alphabets_example_size.dir/tutorial/alphabets/example_size.cpp.o -o ../bin/demo_tutorial_alphabets_example_size -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 51%] Built target demo_tutorial_alignment_scoring_scheme_simple +[ 50%] Built target demo_tutorial_alphabets_example_size make -f demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build.make demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build.make demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alphabets_example_size.dir/link.d CMakeFiles/demo_tutorial_alphabets_example_size.dir/tutorial/alphabets/example_size.cpp.o -o ../bin/demo_tutorial_alphabets_example_size -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 51%] Linking CXX executable ../bin/demo_tutorial_alignment_scoring_scheme_simple +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/link.txt --verbose=1 [ 51%] Building CXX object demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/tutorial/background_and_motivation/example.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/tutorial/background_and_motivation/example.cpp.o -MF CMakeFiles/demo_tutorial_background_and_motivation_example.dir/tutorial/background_and_motivation/example.cpp.o.d -o CMakeFiles/demo_tutorial_background_and_motivation_example.dir/tutorial/background_and_motivation/example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/background_and_motivation/example.cpp -[ 51%] Built target demo_tutorial_alphabets_example_size +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/link.d CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o -o ../bin/demo_tutorial_alignment_scoring_scheme_simple -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 51%] Built target demo_tutorial_alignment_scoring_scheme_simple make -f demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/build.make demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/DependInfo.cmake "--color=" @@ -180765,36 +180801,37 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 52%] Building CXX object demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/tutorial/basics/show_alphabets.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/tutorial/basics/show_alphabets.cpp.o -MF CMakeFiles/demo_tutorial_basics_show_alphabets.dir/tutorial/basics/show_alphabets.cpp.o.d -o CMakeFiles/demo_tutorial_basics_show_alphabets.dir/tutorial/basics/show_alphabets.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/show_alphabets.cpp +[ 52%] Linking CXX executable ../bin/demo_tutorial_basics_show_alphabets [ 52%] Linking CXX executable ../bin/demo_tutorial_basics_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_basics_show_alphabets.dir/link.txt --verbose=1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_basics_base.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_basics_base.dir/link.d CMakeFiles/demo_tutorial_basics_base.dir/tutorial/basics/base.cpp.o -o ../bin/demo_tutorial_basics_base -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_basics_show_alphabets.dir/link.d CMakeFiles/demo_tutorial_basics_show_alphabets.dir/tutorial/basics/show_alphabets.cpp.o -o ../bin/demo_tutorial_basics_show_alphabets -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 52%] Built target demo_tutorial_basics_base make -f demos/CMakeFiles/demo_tutorial_basics_strings.dir/build.make demos/CMakeFiles/demo_tutorial_basics_strings.dir/depend +[ 52%] Built target demo_tutorial_basics_show_alphabets make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_strings.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_basics_strings.dir/build.make demos/CMakeFiles/demo_tutorial_basics_strings.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 52%] Building CXX object demos/CMakeFiles/demo_tutorial_basics_strings.dir/tutorial/basics/strings.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_basics_strings.dir/tutorial/basics/strings.cpp.o -MF CMakeFiles/demo_tutorial_basics_strings.dir/tutorial/basics/strings.cpp.o.d -o CMakeFiles/demo_tutorial_basics_strings.dir/tutorial/basics/strings.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/strings.cpp -[ 52%] Linking CXX executable ../bin/demo_tutorial_basics_show_alphabets -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_basics_show_alphabets.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_basics_show_alphabets.dir/link.d CMakeFiles/demo_tutorial_basics_show_alphabets.dir/tutorial/basics/show_alphabets.cpp.o -o ../bin/demo_tutorial_basics_show_alphabets -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 52%] Built target demo_tutorial_basics_show_alphabets make -f demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_base.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_base.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_basics_strings.dir/build.make demos/CMakeFiles/demo_tutorial_basics_strings.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 52%] Building CXX object demos/CMakeFiles/demo_tutorial_basics_strings.dir/tutorial/basics/strings.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_basics_strings.dir/tutorial/basics/strings.cpp.o -MF CMakeFiles/demo_tutorial_basics_strings.dir/tutorial/basics/strings.cpp.o.d -o CMakeFiles/demo_tutorial_basics_strings.dir/tutorial/basics/strings.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/strings.cpp [ 52%] Building CXX object demos/CMakeFiles/demo_tutorial_bed_io_base.dir/tutorial/bed_io/base.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_bed_io_base.dir/tutorial/bed_io/base.cpp.o -MF CMakeFiles/demo_tutorial_bed_io_base.dir/tutorial/bed_io/base.cpp.o.d -o CMakeFiles/demo_tutorial_bed_io_base.dir/tutorial/bed_io/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/strings.cpp:4: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/base.cpp:3: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -180805,7 +180842,10 @@ from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/strings.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/base.cpp:2: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -180869,25 +180909,10 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/base.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/strings.cpp:4: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -180898,10 +180923,7 @@ from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/base.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/strings.cpp:2: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -180972,6 +180994,20 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -180979,11 +181015,13 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 52%] Linking CXX executable ../bin/demo_tutorial_bed_io_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_bed_io_base.dir/link.txt --verbose=1 [ 52%] Linking CXX executable ../bin/demo_tutorial_basics_strings cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_basics_strings.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_basics_strings.dir/link.d CMakeFiles/demo_tutorial_basics_strings.dir/tutorial/basics/strings.cpp.o -o ../bin/demo_tutorial_basics_strings -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_bed_io_base.dir/link.d CMakeFiles/demo_tutorial_bed_io_base.dir/tutorial/bed_io/base.cpp.o -o ../bin/demo_tutorial_bed_io_base -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 52%] Built target demo_tutorial_basics_strings +[ 52%] Built target demo_tutorial_bed_io_base make -f demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/DependInfo.cmake "--color=" @@ -180992,11 +181030,9 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 53%] Building CXX object demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/tutorial/bed_io/example1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/tutorial/bed_io/example1.cpp.o -MF CMakeFiles/demo_tutorial_bed_io_example1.dir/tutorial/bed_io/example1.cpp.o.d -o CMakeFiles/demo_tutorial_bed_io_example1.dir/tutorial/bed_io/example1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/example1.cpp -[ 53%] Linking CXX executable ../bin/demo_tutorial_bed_io_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_bed_io_base.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_bed_io_base.dir/link.d CMakeFiles/demo_tutorial_bed_io_base.dir/tutorial/bed_io/base.cpp.o -o ../bin/demo_tutorial_bed_io_base -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_basics_strings.dir/link.d CMakeFiles/demo_tutorial_basics_strings.dir/tutorial/basics/strings.cpp.o -o ../bin/demo_tutorial_basics_strings -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 53%] Built target demo_tutorial_bed_io_base +[ 53%] Built target demo_tutorial_basics_strings make -f demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/DependInfo.cmake "--color=" @@ -181101,52 +181137,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bed_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/example1.cpp:7:84: required from here - 7 | BedFileIn bedIn(toCString(getAbsolutePath("demos/tutorial/bed_io/example.bed"))); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bed_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/example1.cpp:7:84: required from here - 7 | BedFileIn bedIn(toCString(getAbsolutePath("demos/tutorial/bed_io/example.bed"))); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -181245,6 +181235,52 @@ | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bed_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/example1.cpp:7:84: required from here + 7 | BedFileIn bedIn(toCString(getAbsolutePath("demos/tutorial/bed_io/example.bed"))); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bed_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/example1.cpp:7:84: required from here + 7 | BedFileIn bedIn(toCString(getAbsolutePath("demos/tutorial/bed_io/example.bed"))); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bed_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ @@ -181297,11 +181333,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ +[ 53%] Linking CXX executable ../bin/demo_tutorial_bed_io_solution1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_bed_io_solution1.dir/link.txt --verbose=1 [ 53%] Linking CXX executable ../bin/demo_tutorial_bed_io_example1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_bed_io_example1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_bed_io_example1.dir/link.d CMakeFiles/demo_tutorial_bed_io_example1.dir/tutorial/bed_io/example1.cpp.o -o ../bin/demo_tutorial_bed_io_example1 -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_bed_io_solution1.dir/link.d CMakeFiles/demo_tutorial_bed_io_solution1.dir/tutorial/bed_io/solution1.cpp.o -o ../bin/demo_tutorial_bed_io_solution1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 53%] Built target demo_tutorial_bed_io_example1 +[ 53%] Built target demo_tutorial_bed_io_solution1 make -f demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/DependInfo.cmake "--color=" @@ -181310,11 +181348,9 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 53%] Building CXX object demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/tutorial/bed_io/solution2.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/tutorial/bed_io/solution2.cpp.o -MF CMakeFiles/demo_tutorial_bed_io_solution2.dir/tutorial/bed_io/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_bed_io_solution2.dir/tutorial/bed_io/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution2.cpp -[ 53%] Linking CXX executable ../bin/demo_tutorial_bed_io_solution1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_bed_io_solution1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_bed_io_solution1.dir/link.d CMakeFiles/demo_tutorial_bed_io_solution1.dir/tutorial/bed_io/solution1.cpp.o -o ../bin/demo_tutorial_bed_io_solution1 -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_bed_io_example1.dir/link.d CMakeFiles/demo_tutorial_bed_io_example1.dir/tutorial/bed_io/example1.cpp.o -o ../bin/demo_tutorial_bed_io_example1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 53%] Built target demo_tutorial_bed_io_solution1 +[ 53%] Built target demo_tutorial_bed_io_example1 make -f demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/DependInfo.cmake "--color=" @@ -181419,6 +181455,52 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bed_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution2.cpp:10:14: required from here + 10 | if (!open(bedIn, toCString(getAbsolutePath("demos/tutorial/bed_io/example.bed")))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bed_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution2.cpp:10:14: required from here + 10 | if (!open(bedIn, toCString(getAbsolutePath("demos/tutorial/bed_io/example.bed")))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -181515,65 +181597,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bed_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution2.cpp:10:14: required from here - 10 | if (!open(bedIn, toCString(getAbsolutePath("demos/tutorial/bed_io/example.bed")))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bed_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution2.cpp:10:14: required from here - 10 | if (!open(bedIn, toCString(getAbsolutePath("demos/tutorial/bed_io/example.bed")))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -[ 53%] Linking CXX executable ../bin/demo_tutorial_bed_io_solution3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_bed_io_solution3.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_bed_io_solution3.dir/link.d CMakeFiles/demo_tutorial_bed_io_solution3.dir/tutorial/bed_io/solution3.cpp.o -o ../bin/demo_tutorial_bed_io_solution3 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 53%] Built target demo_tutorial_bed_io_solution3 -make -f demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 53%] Building CXX object demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/tutorial/blast_io/read_assignment.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/tutorial/blast_io/read_assignment.cpp.o -MF CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/tutorial/blast_io/read_assignment.cpp.o.d -o CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/tutorial/blast_io/read_assignment.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); @@ -181609,6 +181632,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 53%] Linking CXX executable ../bin/demo_tutorial_bed_io_solution3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_bed_io_solution3.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_bed_io_solution3.dir/link.d CMakeFiles/demo_tutorial_bed_io_solution3.dir/tutorial/bed_io/solution3.cpp.o -o ../bin/demo_tutorial_bed_io_solution3 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 53%] Built target demo_tutorial_bed_io_solution3 +make -f demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 53%] Building CXX object demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/tutorial/blast_io/read_assignment.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/tutorial/blast_io/read_assignment.cpp.o -MF CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/tutorial/blast_io/read_assignment.cpp.o.d -o CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/tutorial/blast_io/read_assignment.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp [ 53%] Linking CXX executable ../bin/demo_tutorial_bed_io_solution2 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_bed_io_solution2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_bed_io_solution2.dir/link.d CMakeFiles/demo_tutorial_bed_io_solution2.dir/tutorial/bed_io/solution2.cpp.o -o ../bin/demo_tutorial_bed_io_solution2 -lrt -lz -lbz2 @@ -181993,16 +182029,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:68: -In member function 'constexpr const std::array<_Tp, _Nm>::value_type& std::array<_Tp, _Nm>::operator[](size_type) const [with _Tp = const seqan::BlastMatchField<>::Enum; long unsigned int _Nm = 12]', - inlined from 'void seqan::_readCommentLinesImpl(BlastRecord&, TFwdIterator&, BlastIOContext&, const BlastTabular&) [with TSpecs = {BlastMatch, Alloc >, Tag >, Gaps, Alloc >, Tag >, unsigned int, std::__cxx11::basic_string, std::allocator >, std::__cxx11::basic_string, std::allocator >, std::vector, std::allocator >, std::allocator, std::allocator > > >, String > >, std::__cxx11::basic_string, std::allocator >, std::vector, std::allocator >, std::allocator, std::allocator > > >, std::__cxx11::basic_string, std::allocator >, unsigned int}; TFwdIterator = Iter >, StreamIterator > >; TScore = Score, Blosum62_> >; BlastProgram p = seqan::BlastProgram::DYNAMIC; BlastTabularSpec h = seqan::BlastTabularSpec::DYNAMIC]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/blast/blast_tabular_in.h:345:74: -/usr/include/c++/15/array:221:24: warning: array subscript 12 is above array bounds of 'std::__array_traits::Enum, 12>::_Type' {aka 'const seqan::BlastMatchField<>::Enum [12]'} [-Warray-bounds=] - 221 | return _M_elems[__n]; - | ~~~~~~~~^ -/usr/include/c++/15/array: In function 'void seqan::_readCommentLinesImpl(BlastRecord&, TFwdIterator&, BlastIOContext&, const BlastTabular&) [with TSpecs = {BlastMatch, Alloc >, Tag >, Gaps, Alloc >, Tag >, unsigned int, std::__cxx11::basic_string, std::allocator >, std::__cxx11::basic_string, std::allocator >, std::vector, std::allocator >, std::allocator, std::allocator > > >, String > >, std::__cxx11::basic_string, std::allocator >, std::vector, std::allocator >, std::allocator, std::allocator > > >, std::__cxx11::basic_string, std::allocator >, unsigned int}; TFwdIterator = Iter >, StreamIterator > >; TScore = Score, Blosum62_> >; BlastProgram p = seqan::BlastProgram::DYNAMIC; BlastTabularSpec h = seqan::BlastTabularSpec::DYNAMIC]': -/usr/include/c++/15/array:117:55: note: while referencing 'std::array::Enum, 12>::_M_elems' - 117 | typename __array_traits<_Tp, _Nm>::_Type _M_elems; - | ^~~~~~~~ [ 53%] Linking CXX executable ../bin/demo_tutorial_blast_io_write_assignment cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/link.d CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/tutorial/blast_io/write_assignment.cpp.o -o ../bin/demo_tutorial_blast_io_write_assignment -lrt -lz -lbz2 @@ -182016,6 +182042,16 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 54%] Building CXX object demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/tutorial/consensus_alignment/with_positions.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/tutorial/consensus_alignment/with_positions.cpp.o -MF CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/tutorial/consensus_alignment/with_positions.cpp.o.d -o CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/tutorial/consensus_alignment/with_positions.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/with_positions.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:68: +In member function 'constexpr const std::array<_Tp, _Nm>::value_type& std::array<_Tp, _Nm>::operator[](size_type) const [with _Tp = const seqan::BlastMatchField<>::Enum; long unsigned int _Nm = 12]', + inlined from 'void seqan::_readCommentLinesImpl(BlastRecord&, TFwdIterator&, BlastIOContext&, const BlastTabular&) [with TSpecs = {BlastMatch, Alloc >, Tag >, Gaps, Alloc >, Tag >, unsigned int, std::__cxx11::basic_string, std::allocator >, std::__cxx11::basic_string, std::allocator >, std::vector, std::allocator >, std::allocator, std::allocator > > >, String > >, std::__cxx11::basic_string, std::allocator >, std::vector, std::allocator >, std::allocator, std::allocator > > >, std::__cxx11::basic_string, std::allocator >, unsigned int}; TFwdIterator = Iter >, StreamIterator > >; TScore = Score, Blosum62_> >; BlastProgram p = seqan::BlastProgram::DYNAMIC; BlastTabularSpec h = seqan::BlastTabularSpec::DYNAMIC]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/blast/blast_tabular_in.h:345:74: +/usr/include/c++/15/array:221:24: warning: array subscript 12 is above array bounds of 'std::__array_traits::Enum, 12>::_Type' {aka 'const seqan::BlastMatchField<>::Enum [12]'} [-Warray-bounds=] + 221 | return _M_elems[__n]; + | ~~~~~~~~^ +/usr/include/c++/15/array: In function 'void seqan::_readCommentLinesImpl(BlastRecord&, TFwdIterator&, BlastIOContext&, const BlastTabular&) [with TSpecs = {BlastMatch, Alloc >, Tag >, Gaps, Alloc >, Tag >, unsigned int, std::__cxx11::basic_string, std::allocator >, std::__cxx11::basic_string, std::allocator >, std::vector, std::allocator >, std::allocator, std::allocator > > >, String > >, std::__cxx11::basic_string, std::allocator >, std::vector, std::allocator >, std::allocator, std::allocator > > >, std::__cxx11::basic_string, std::allocator >, unsigned int}; TFwdIterator = Iter >, StreamIterator > >; TScore = Score, Blosum62_> >; BlastProgram p = seqan::BlastProgram::DYNAMIC; BlastTabularSpec h = seqan::BlastTabularSpec::DYNAMIC]': +/usr/include/c++/15/array:117:55: note: while referencing 'std::array::Enum, 12>::_M_elems' + 117 | typename __array_traits<_Tp, _Nm>::_Type _M_elems; + | ^~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long unsigned int; TSource = String >]', inlined from 'void seqan::_readField(BlastMatch&, BlastRecord&, BlastIOContext&, BlastMatchField<>::Enum) [with TAlignRow0 = Gaps, Alloc<> >, Tag >; TAlignRow1 = Gaps, Alloc<> >, Tag >; TPos = unsigned int; TQId = std::__cxx11::basic_string; TSId = std::__cxx11::basic_string; TScore = Score, Blosum62_> >; TSpecs = {BlastMatch, Alloc >, Tag >, Gaps, Alloc >, Tag >, unsigned int, std::__cxx11::basic_string, std::allocator >, std::__cxx11::basic_string, std::allocator >, std::vector, std::allocator >, std::allocator, std::allocator > > >, String > >, std::__cxx11::basic_string, std::allocator >, std::vector, std::allocator >, std::allocator, std::allocator > > >, std::__cxx11::basic_string, std::allocator >, unsigned int}; BlastProgram p = seqan::BlastProgram::DYNAMIC; BlastTabularSpec h = seqan::BlastTabularSpec::DYNAMIC]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/blast/blast_tabular_in.h:582:65: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -182520,19 +182556,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 54%] Linking CXX executable ../bin/demo_tutorial_blast_io_read_assignment -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/link.d CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/tutorial/blast_io/read_assignment.cpp.o -o ../bin/demo_tutorial_blast_io_read_assignment -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 54%] Built target demo_tutorial_blast_io_read_assignment -make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 54%] Building CXX object demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o -MF CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o.d -o CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' @@ -184031,6 +184054,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +[ 54%] Linking CXX executable ../bin/demo_tutorial_blast_io_read_assignment +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/link.d CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/tutorial/blast_io/read_assignment.cpp.o -o ../bin/demo_tutorial_blast_io_read_assignment -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 54%] Built target demo_tutorial_blast_io_read_assignment +make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 54%] Building CXX object demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o -MF CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o.d -o CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -186250,6 +186286,31 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 54%] Building CXX object demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/tutorial/file_io_overview/solution1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/tutorial/file_io_overview/solution1.cpp.o -MF CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/tutorial/file_io_overview/solution1.cpp.o.d -o CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/tutorial/file_io_overview/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution1.cpp +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, @@ -186345,31 +186406,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -186767,101 +186803,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 54%] Building CXX object demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/tutorial/file_io_overview/solution2.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/tutorial/file_io_overview/solution2.cpp.o -MF CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/tutorial/file_io_overview/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/tutorial/file_io_overview/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution2.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution2.cpp:1: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:46: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -187113,6 +187054,101 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution2.cpp:1: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:46: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -187223,6 +187259,10 @@ | ^~~~~~~~ [ 54%] Linking CXX executable ../bin/demo_tutorial_file_io_overview_solution1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/link.txt --verbose=1 +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/link.d CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/tutorial/file_io_overview/solution1.cpp.o -o ../bin/demo_tutorial_file_io_overview_solution1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 54%] Built target demo_tutorial_file_io_overview_solution1 @@ -187234,10 +187274,27 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 54%] Building CXX object demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/tutorial/file_io_overview/solution3.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/tutorial/file_io_overview/solution3.cpp.o -MF CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/tutorial/file_io_overview/solution3.cpp.o.d -o CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/tutorial/file_io_overview/solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution3.cpp -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, @@ -187333,27 +187390,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -187998,6 +188034,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main(int, const char**)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -188130,10 +188170,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main(int, const char**)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -188563,6 +188599,12 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 55%] Building CXX object demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/tutorial/fragment_store/access_aligned_reads2.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/tutorial/fragment_store/access_aligned_reads2.cpp.o -MF CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/tutorial/fragment_store/access_aligned_reads2.cpp.o.d -o CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/tutorial/fragment_store/access_aligned_reads2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads2.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -188695,12 +188737,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -188919,6 +188955,27 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -189117,27 +189174,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': @@ -189422,19 +189458,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 55%] Linking CXX executable ../bin/demo_tutorial_fragment_store_access_aligned_reads -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/link.d CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/tutorial/fragment_store/access_aligned_reads.cpp.o -o ../bin/demo_tutorial_fragment_store_access_aligned_reads -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 55%] Built target demo_tutorial_fragment_store_access_aligned_reads -make -f demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 55%] Building CXX object demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o -MF CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o.d -o CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/base.cpp In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -189662,6 +189685,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 55%] Linking CXX executable ../bin/demo_tutorial_fragment_store_access_aligned_reads +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/link.txt --verbose=1 In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50, inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, @@ -189692,6 +189717,17 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/link.d CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/tutorial/fragment_store/access_aligned_reads.cpp.o -o ../bin/demo_tutorial_fragment_store_access_aligned_reads -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 55%] Built target demo_tutorial_fragment_store_access_aligned_reads +make -f demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 55%] Building CXX object demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o -MF CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o.d -o CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -190137,19 +190173,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 55%] Linking CXX executable ../bin/demo_tutorial_fragment_store_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_fragment_store_base.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_fragment_store_base.dir/link.d CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o -o ../bin/demo_tutorial_fragment_store_base -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 55%] Built target demo_tutorial_fragment_store_base -make -f demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 55%] Building CXX object demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o -MF CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o.d -o CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/example_hashing.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' @@ -190372,6 +190395,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 55%] Linking CXX executable ../bin/demo_tutorial_fragment_store_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_fragment_store_base.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -190406,6 +190431,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_fragment_store_base.dir/link.d CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o -o ../bin/demo_tutorial_fragment_store_base -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -190438,6 +190465,15 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 55%] Built target demo_tutorial_fragment_store_base +make -f demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 55%] Building CXX object demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o -MF CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o.d -o CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/example_hashing.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -190835,6 +190871,12 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -190959,12 +191001,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -191368,27 +191404,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50, inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, @@ -191419,6 +191434,27 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -191589,6 +191625,17 @@ | ^~~~~~~~ [ 56%] Linking CXX executable ../bin/demo_tutorial_fragment_store_display_aligned_reads cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/link.d CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/tutorial/fragment_store/display_aligned_reads.cpp.o -o ../bin/demo_tutorial_fragment_store_display_aligned_reads -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 56%] Built target demo_tutorial_fragment_store_display_aligned_reads +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 56%] Building CXX object demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o -MF CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o.d -o CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_2_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', inlined from 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io/gff_io_base.h:379:44: @@ -191614,17 +191661,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/link.d CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/tutorial/fragment_store/display_aligned_reads.cpp.o -o ../bin/demo_tutorial_fragment_store_display_aligned_reads -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 56%] Built target demo_tutorial_fragment_store_display_aligned_reads -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 56%] Building CXX object demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o -MF CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o.d -o CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_2_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -191809,17 +191845,6 @@ | ^~~~~~~~~~~~~~~ [ 56%] Linking CXX executable ../bin/demo_tutorial_genome_annotations_assignment_1_solution cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/link.d CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/tutorial/genome_annotations/assignment_1_solution.cpp.o -o ../bin/demo_tutorial_genome_annotations_assignment_1_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 56%] Built target demo_tutorial_genome_annotations_assignment_1_solution -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 56%] Building CXX object demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o -MF CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o.d -o CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_3_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -191893,6 +191918,7 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/link.d CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/tutorial/genome_annotations/assignment_1_solution.cpp.o -o ../bin/demo_tutorial_genome_annotations_assignment_1_solution -lrt -lz -lbz2 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGtf_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -191918,6 +191944,14 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 56%] Built target demo_tutorial_genome_annotations_assignment_1_solution +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -191944,6 +191978,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +[ 56%] Building CXX object demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o -MF CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o.d -o CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_3_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -192412,6 +192448,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 56%] Linking CXX executable ../bin/demo_tutorial_genome_annotations_assignment_3_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/link.d CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o -o ../bin/demo_tutorial_genome_annotations_assignment_3_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 56%] Built target demo_tutorial_genome_annotations_assignment_3_solution +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 56%] Building CXX object demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o -MF CMakeFiles/demo_tutorial_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o.d -o CMakeFiles/demo_tutorial_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -192495,19 +192544,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 56%] Linking CXX executable ../bin/demo_tutorial_genome_annotations_assignment_3_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/link.d CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o -o ../bin/demo_tutorial_genome_annotations_assignment_3_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 56%] Built target demo_tutorial_genome_annotations_assignment_3_solution -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 56%] Building CXX object demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o -MF CMakeFiles/demo_tutorial_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o.d -o CMakeFiles/demo_tutorial_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -193000,6 +193036,17 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ [ 56%] Linking CXX executable ../bin/demo_tutorial_genome_annotations_assignment_4_solution cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/link.d CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/tutorial/genome_annotations/assignment_4_solution.cpp.o -o ../bin/demo_tutorial_genome_annotations_assignment_4_solution -lrt -lz -lbz2 @@ -193013,17 +193060,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 56%] Building CXX object demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/tutorial/gff_and_gtf_io/base.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/tutorial/gff_and_gtf_io/base.cpp.o -MF CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/tutorial/gff_and_gtf_io/base.cpp.o.d -o CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/tutorial/gff_and_gtf_io/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/base.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io.h:45, @@ -193322,17 +193358,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 57%] Building CXX object demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/tutorial/gff_and_gtf_io/example2.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/tutorial/gff_and_gtf_io/example2.cpp.o -MF CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/tutorial/gff_and_gtf_io/example2.cpp.o.d -o CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/tutorial/gff_and_gtf_io/example2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/example2.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io.h:45, @@ -193506,12 +193531,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -[ 57%] Linking CXX executable ../bin/demo_tutorial_gff_and_gtf_io_example1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -193523,6 +193557,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 57%] Linking CXX executable ../bin/demo_tutorial_gff_and_gtf_io_example1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/link.d CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/tutorial/gff_and_gtf_io/example1.cpp.o -o ../bin/demo_tutorial_gff_and_gtf_io_example1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 57%] Built target demo_tutorial_gff_and_gtf_io_example1 @@ -193534,6 +193570,10 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 57%] Building CXX object demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/tutorial/gff_and_gtf_io/solution1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/tutorial/gff_and_gtf_io/solution1.cpp.o -MF CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/tutorial/gff_and_gtf_io/solution1.cpp.o.d -o CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/tutorial/gff_and_gtf_io/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution1.cpp +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io.h:45, @@ -193707,10 +193747,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ [ 57%] Linking CXX executable ../bin/demo_tutorial_gff_and_gtf_io_example2 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/link.d CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/tutorial/gff_and_gtf_io/example2.cpp.o -o ../bin/demo_tutorial_gff_and_gtf_io_example2 -lrt -lz -lbz2 @@ -193925,6 +193961,31 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 57%] Building CXX object demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o -MF CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o.d -o CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution3.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter, std::char_traits >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io/gff_io_base.h:379:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter, std::char_traits >, StreamIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter, std::char_traits >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io/gff_io_base.h:386:42: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter, std::char_traits >, StreamIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io.h:45, @@ -194020,31 +194081,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter, std::char_traits >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io/gff_io_base.h:379:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter, std::char_traits >, StreamIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter, std::char_traits >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io/gff_io_base.h:386:42: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter, std::char_traits >, StreamIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); @@ -194433,6 +194469,11 @@ make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 58%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -194512,9 +194553,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -194522,8 +194560,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 58%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -194939,10 +194975,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 58%] Linking CXX executable ../bin/demo_tutorial_graph_solution_1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_graph_solution_1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_graph_solution_1.dir/link.d CMakeFiles/demo_tutorial_graph_solution_1.dir/tutorial/graph/solution_1.cpp.o -o ../bin/demo_tutorial_graph_solution_1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -194950,15 +194982,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 58%] Built target demo_tutorial_graph_solution_1 -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 58%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet > >; TIndexSpec = void; TSpec = ParentLinks; TDfsOrder = Postorder_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1880:20: required from 'bool seqan::goDown(Iter > >&) [with TIndex = Index > > >; TSpec = ParentLinks]' @@ -195116,6 +195139,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +[ 58%] Linking CXX executable ../bin/demo_tutorial_graph_solution_1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_graph_solution_1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_graph_solution_1.dir/link.d CMakeFiles/demo_tutorial_graph_solution_1.dir/tutorial/graph/solution_1.cpp.o -o ../bin/demo_tutorial_graph_solution_1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 58%] Built target demo_tutorial_graph_solution_1 +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 58%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -195480,156 +195516,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp:2: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' 881 | writer->push(Val_); @@ -196199,6 +196085,156 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp:2: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -197974,6 +198010,17 @@ | ^~~~~~~~ [ 58%] Linking CXX executable ../bin/demo_tutorial_index_iterators_index_assignment2 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/link.d CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o -o ../bin/demo_tutorial_index_iterators_index_assignment2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 58%] Built target demo_tutorial_index_iterators_index_assignment2 +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 59%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_preorder.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::HistoryStackFM_ >*; TParam = seqan::HistoryStackFM_ >]': @@ -198044,17 +198091,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_fm_stree.h:70:5: note: because 'seqan::HistoryStackFM_ >' has user-provided 'const seqan::HistoryStackFM_& seqan::HistoryStackFM_::operator=(const seqan::HistoryStackFM_&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]' 70 | operator=(HistoryStackFM_ const & _origin) | ^~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/link.d CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o -o ../bin/demo_tutorial_index_iterators_index_assignment2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 58%] Built target demo_tutorial_index_iterators_index_assignment2 -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 59%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_preorder.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -199824,6 +199860,10 @@ | ^~~~~~~~~~~~~~ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/link.d CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/tutorial/index_iterators/index_bidirectional_search.cpp.o -o ../bin/demo_tutorial_index_iterators_index_bidirectional_search -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 59%] Built target demo_tutorial_index_iterators_index_bidirectional_search +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -199838,11 +199878,9 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 59%] Built target demo_tutorial_index_iterators_index_bidirectional_search /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 646 | struct FunctorGlobalize : public std::unary_function | ^~~~~~~~~~~~~~ -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/depend /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -199852,8 +199890,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -200391,6 +200427,8 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 59%] Linking CXX executable ../bin/demo_tutorial_index_iterators_index_search +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_index_iterators_index_search.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -200592,15 +200630,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -[ 59%] Linking CXX executable ../bin/demo_tutorial_index_iterators_index_search -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_index_iterators_index_search.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_index_iterators_index_search.dir/link.d CMakeFiles/demo_tutorial_index_iterators_index_search.dir/tutorial/index_iterators/index_search.cpp.o -o ../bin/demo_tutorial_index_iterators_index_search -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 59%] Built target demo_tutorial_index_iterators_index_search @@ -200612,6 +200641,13 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 59%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/tutorial/index_iterators/iterator_assignment2.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/tutorial/index_iterators/iterator_assignment2.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/tutorial/index_iterators/iterator_assignment2.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/tutorial/index_iterators/iterator_assignment2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_assignment2.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index > >; TSpec = Preorder]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = String >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' @@ -200842,6 +200878,17 @@ | ^~~~~~~~~~~~~~ [ 59%] Linking CXX executable ../bin/demo_tutorial_index_iterators_index_search2 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/link.d CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/tutorial/index_iterators/index_search2.cpp.o -o ../bin/demo_tutorial_index_iterators_index_search2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 59%] Built target demo_tutorial_index_iterators_index_search2 +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 59%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -200851,9 +200898,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/link.d CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/tutorial/index_iterators/index_search2.cpp.o -o ../bin/demo_tutorial_index_iterators_index_search2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 59%] Built target demo_tutorial_index_iterators_index_search2 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 63 | struct LessPairI1_ : public std::unary_function, bool> @@ -200861,14 +200905,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 59%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -201298,15 +201334,6 @@ | ^~~~~~~~~~~~~~ [ 59%] Linking CXX executable ../bin/demo_tutorial_index_iterators_iterator_assignment2 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/link.d CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/tutorial/index_iterators/iterator_assignment2.cpp.o -o ../bin/demo_tutorial_index_iterators_iterator_assignment2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 59%] Built target demo_tutorial_index_iterators_iterator_assignment2 -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -201316,8 +201343,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 59%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_solution2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_solution2.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_solution2.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 63 | struct LessPairI1_ : public std::unary_function, bool> @@ -201325,6 +201350,17 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/link.d CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/tutorial/index_iterators/iterator_assignment2.cpp.o -o ../bin/demo_tutorial_index_iterators_iterator_assignment2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 59%] Built target demo_tutorial_index_iterators_iterator_assignment2 +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 59%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_solution2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_solution2.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_solution2.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -201777,32 +201813,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -201843,41 +201853,29 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -202070,6 +202068,44 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -203959,24 +203995,24 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -[ 60%] Linking CXX executable ../bin/demo_tutorial_indexed_fasta_io_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/link.d CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/tutorial/indexed_fasta_io/base.cpp.o -o ../bin/demo_tutorial_indexed_fasta_io_base -lrt -lz -lbz2 +[ 60%] Linking CXX executable ../bin/demo_tutorial_index_iterators_iterator_solution1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/link.d CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o -o ../bin/demo_tutorial_index_iterators_iterator_solution1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 60%] Built target demo_tutorial_indexed_fasta_io_base +[ 60%] Built target demo_tutorial_index_iterators_iterator_solution1 make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/DependInfo.cmake "--color=" +[ 60%] Linking CXX executable ../bin/demo_tutorial_indexed_fasta_io_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 60%] Linking CXX executable ../bin/demo_tutorial_index_iterators_iterator_solution1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/link.txt --verbose=1 [ 60%] Building CXX object demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/tutorial/indexed_fasta_io/solution1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/tutorial/indexed_fasta_io/solution1.cpp.o -MF CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/tutorial/indexed_fasta_io/solution1.cpp.o.d -o CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/tutorial/indexed_fasta_io/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/link.d CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o -o ../bin/demo_tutorial_index_iterators_iterator_solution1 -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/link.d CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/tutorial/indexed_fasta_io/base.cpp.o -o ../bin/demo_tutorial_indexed_fasta_io_base -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 60%] Built target demo_tutorial_index_iterators_iterator_solution1 +[ 60%] Built target demo_tutorial_indexed_fasta_io_base make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/DependInfo.cmake "--color=" @@ -204078,13 +204114,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -204164,6 +204193,13 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -204236,6 +204272,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -204275,19 +204324,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 2155 | public std::binary_function< @@ -204392,14 +204428,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ @@ -204412,14 +204442,26 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here 699 | if (!open(bamFile, bamFilename)) | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution2.cpp:2: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ @@ -204432,18 +204474,12 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here 699 | if (!open(bamFile, bamFilename)) | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution2.cpp:2: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -204508,6 +204544,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 60%] Building CXX object demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/tutorial/indices/assignment_1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/tutorial/indices/assignment_1.cpp.o -MF CMakeFiles/demo_tutorial_indices_assignment_1.dir/tutorial/indices/assignment_1.cpp.o.d -o CMakeFiles/demo_tutorial_indices_assignment_1.dir/tutorial/indices/assignment_1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_1.cpp +[ 60%] Linking CXX executable ../bin/demo_tutorial_indexed_fasta_io_solution2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/link.d CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/tutorial/indexed_fasta_io/solution2.cpp.o -o ../bin/demo_tutorial_indexed_fasta_io_solution2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 60%] Built target demo_tutorial_indexed_fasta_io_solution2 +make -f demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 60%] Building CXX object demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o -MF CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o.d -o CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -204654,19 +204703,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 60%] Linking CXX executable ../bin/demo_tutorial_indexed_fasta_io_solution2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/link.d CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/tutorial/indexed_fasta_io/solution2.cpp.o -o ../bin/demo_tutorial_indexed_fasta_io_solution2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 60%] Built target demo_tutorial_indexed_fasta_io_solution2 -make -f demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 60%] Building CXX object demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o -MF CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o.d -o CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -205063,19 +205099,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 60%] Linking CXX executable ../bin/demo_tutorial_indices_assignment_1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indices_assignment_1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indices_assignment_1.dir/link.d CMakeFiles/demo_tutorial_indices_assignment_1.dir/tutorial/indices/assignment_1.cpp.o -o ../bin/demo_tutorial_indices_assignment_1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 60%] Built target demo_tutorial_indices_assignment_1 -make -f demos/CMakeFiles/demo_tutorial_indices_base.dir/build.make demos/CMakeFiles/demo_tutorial_indices_base.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_base.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_indices_base.dir/build.make demos/CMakeFiles/demo_tutorial_indices_base.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 60%] Building CXX object demos/CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o -MF CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o.d -o CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -205326,6 +205349,19 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 60%] Linking CXX executable ../bin/demo_tutorial_indices_assignment_1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indices_assignment_1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indices_assignment_1.dir/link.d CMakeFiles/demo_tutorial_indices_assignment_1.dir/tutorial/indices/assignment_1.cpp.o -o ../bin/demo_tutorial_indices_assignment_1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 60%] Built target demo_tutorial_indices_assignment_1 +make -f demos/CMakeFiles/demo_tutorial_indices_base.dir/build.make demos/CMakeFiles/demo_tutorial_indices_base.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_base.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_indices_base.dir/build.make demos/CMakeFiles/demo_tutorial_indices_base.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 60%] Building CXX object demos/CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o -MF CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o.d -o CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:72, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: @@ -205507,6 +205543,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 61%] Linking CXX executable ../bin/demo_tutorial_indices_assignment_2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indices_assignment_2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indices_assignment_2.dir/link.d CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o -o ../bin/demo_tutorial_indices_assignment_2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 61%] Built target demo_tutorial_indices_assignment_2 +make -f demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build.make demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build.make demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 61%] Building CXX object demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o -MF CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o.d -o CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/find2_index_approx.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -205757,19 +205806,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 61%] Linking CXX executable ../bin/demo_tutorial_indices_assignment_2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indices_assignment_2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indices_assignment_2.dir/link.d CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o -o ../bin/demo_tutorial_indices_assignment_2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 61%] Built target demo_tutorial_indices_assignment_2 -make -f demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build.make demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build.make demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 61%] Building CXX object demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o -MF CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o.d -o CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/find2_index_approx.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:72, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: @@ -205805,6 +205841,151 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:429:9: note: because 'seqan::Index, seqan::Alloc<> >, seqan::IndexEsa<> >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::String, seqan::Alloc<> >; TSpec = void]' 429 | Index(Index const &other): | ^~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/find2_index_approx.cpp:5: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/bits/stl_tree.h:67, + from /usr/include/c++/15/set:64, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/find2_index_approx.cpp:2: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -206388,87 +206569,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/find2_index_approx.cpp:5: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/bits/stl_tree.h:67, - from /usr/include/c++/15/set:64, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/find2_index_approx.cpp:2: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > >]' 881 | writer->push(Val_); @@ -206510,29 +206610,12 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -206618,41 +206701,36 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -206709,6 +206787,55 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 666 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 714 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 782 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 851 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 885 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 933 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1814 | struct _qgramComp : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1833 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple, 6, BitPacked<> >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]' 332 | return processBuffer(*chain.first, *this); @@ -206762,150 +206889,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple, Tag >; TConfig = MapperConfigSize<_skew3NMapExtended, Tuple, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]' - 332 | return processBuffer(*chain.first, *this); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:556:50: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]' - 556 | else return handler2->next(); - | ~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:744:38: required from 'void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]' - 744 | buffer = handler.next(); - | ~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:870:24: required from 'seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 870 | reader->pop(); - | ~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger3.h:111:17: required from 'seqan::Pipe, seqan::Merger3>& seqan::Pipe, seqan::Merger3>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TInput12 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]' - 111 | ++in.in2; - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:329:13: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:186:37: required from 'void seqan::_createSuffixArrayWrapper(TSA&, const TText&, const TAlgSpec&, False) [with TSA = String > >; TText = String >; TAlgSpec = Skew7]' - 186 | _createSuffixArrayPipelining(sa, s, alg); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:198:34: required from 'void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String > >; TText = String >; TAlgSpec = Skew7]' - 198 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_fm.h:445:22: required from 'bool seqan::indexCreate(Index >&, FibreSALF) [with TText = String >; TSpec = void; TConfig = FMIndexConfig; FibreSALF = const Tag]' - 445 | createSuffixArray(tempSA, text, TAlgo()); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_fm.h:463:23: required from 'bool seqan::indexCreate(Index >&, FibreSA) [with TText = String >; TSpec = void; TConfig = FMIndexConfig; FibreSA = const Tag]' - 463 | return indexCreate(index, FibreSALF()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = String >; TSpec = FMIndex<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/base.cpp:81:17: required from here - 81 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:202:30: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 202 | *refNext = *I; - | ~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:203:24: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 203 | *I = *refPrev; - | ~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:243:26: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 243 | *cur = *refPrev; - | ~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 666 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 714 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 782 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 851 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 885 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 933 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1814 | struct _qgramComp : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1833 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -207058,6 +207041,59 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple, Tag >; TConfig = MapperConfigSize<_skew3NMapExtended, Tuple, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]' + 332 | return processBuffer(*chain.first, *this); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:556:50: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]' + 556 | else return handler2->next(); + | ~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:744:38: required from 'void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]' + 744 | buffer = handler.next(); + | ~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:870:24: required from 'seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 870 | reader->pop(); + | ~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger3.h:111:17: required from 'seqan::Pipe, seqan::Merger3>& seqan::Pipe, seqan::Merger3>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TInput12 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]' + 111 | ++in.in2; + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:329:13: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:186:37: required from 'void seqan::_createSuffixArrayWrapper(TSA&, const TText&, const TAlgSpec&, False) [with TSA = String > >; TText = String >; TAlgSpec = Skew7]' + 186 | _createSuffixArrayPipelining(sa, s, alg); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:198:34: required from 'void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String > >; TText = String >; TAlgSpec = Skew7]' + 198 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_fm.h:445:22: required from 'bool seqan::indexCreate(Index >&, FibreSALF) [with TText = String >; TSpec = void; TConfig = FMIndexConfig; FibreSALF = const Tag]' + 445 | createSuffixArray(tempSA, text, TAlgo()); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_fm.h:463:23: required from 'bool seqan::indexCreate(Index >&, FibreSA) [with TText = String >; TSpec = void; TConfig = FMIndexConfig; FibreSA = const Tag]' + 463 | return indexCreate(index, FibreSALF()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = String >; TSpec = FMIndex<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/base.cpp:81:17: required from here + 81 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:202:30: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 202 | *refNext = *I; + | ~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:203:24: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 203 | *I = *refPrev; + | ~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:243:26: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 243 | *cur = *refPrev; + | ~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -208264,19 +208300,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 61%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/tutorial/iterators/assignment_1_solution.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/tutorial/iterators/assignment_1_solution.cpp.o -MF CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/tutorial/iterators/assignment_1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/tutorial/iterators/assignment_1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1_solution.cpp -[ 61%] Linking CXX executable ../bin/demo_tutorial_indices_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indices_base.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indices_base.dir/link.d CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o -o ../bin/demo_tutorial_indices_base -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 61%] Built target demo_tutorial_indices_base -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 61%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o -MF CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_2_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -208374,6 +208397,19 @@ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/link.d CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/tutorial/iterators/assignment_1_solution.cpp.o -o ../bin/demo_tutorial_iterators_assignment_1_solution -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 61%] Built target demo_tutorial_iterators_assignment_1_solution +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 61%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o -MF CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_2_solution.cpp +[ 61%] Linking CXX executable ../bin/demo_tutorial_indices_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indices_base.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indices_base.dir/link.d CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o -o ../bin/demo_tutorial_indices_base -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 61%] Built target demo_tutorial_indices_base make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/DependInfo.cmake "--color=" @@ -208474,19 +208510,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 62%] Linking CXX executable ../bin/demo_tutorial_iterators_assignment_2_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/link.d CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o -o ../bin/demo_tutorial_iterators_assignment_2_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 62%] Built target demo_tutorial_iterators_assignment_2_solution -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 62%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o -MF CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_3_workshop_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -208579,6 +208602,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 62%] Linking CXX executable ../bin/demo_tutorial_iterators_assignment_2_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/link.d CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o -o ../bin/demo_tutorial_iterators_assignment_2_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 62%] Built target demo_tutorial_iterators_assignment_2_solution +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 62%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o -MF CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_3_workshop_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -208684,17 +208720,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 62%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/tutorial/iterators/assignment_4_workshop_solution.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/tutorial/iterators/assignment_4_workshop_solution.cpp.o -MF CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/tutorial/iterators/assignment_4_workshop_solution.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/tutorial/iterators/assignment_4_workshop_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_4_workshop_solution.cpp -[ 62%] Linking CXX executable ../bin/demo_tutorial_iterators_assignment_3_workshop_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/link.d CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o -o ../bin/demo_tutorial_iterators_assignment_3_workshop_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 62%] Built target demo_tutorial_iterators_assignment_3_workshop_solution -make -f demos/CMakeFiles/demo_tutorial_iterators_base.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_base.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_base.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_iterators_base.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_base.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -208773,8 +208798,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 62%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o -MF CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -208789,6 +208812,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 62%] Linking CXX executable ../bin/demo_tutorial_iterators_assignment_3_workshop_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/link.d CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o -o ../bin/demo_tutorial_iterators_assignment_3_workshop_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 62%] Built target demo_tutorial_iterators_assignment_3_workshop_solution +make -f demos/CMakeFiles/demo_tutorial_iterators_base.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_base.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_base.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_iterators_base.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_base.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 62%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o -MF CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/base.cpp [ 62%] Linking CXX executable ../bin/demo_tutorial_iterators_base cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_iterators_base.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_iterators_base.dir/link.d CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o -o ../bin/demo_tutorial_iterators_base -lrt -lz -lbz2 @@ -208915,13 +208951,13 @@ make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/DependInfo.cmake "--color=" -[ 62%] Linking CXX executable ../bin/demo_tutorial_iterators_sequence_iterator_demo -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 63%] Building CXX object demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/tutorial/journaled_set/example_join.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/tutorial/journaled_set/example_join.cpp.o -MF CMakeFiles/demo_tutorial_journaled_set_example_join.dir/tutorial/journaled_set/example_join.cpp.o.d -o CMakeFiles/demo_tutorial_journaled_set_example_join.dir/tutorial/journaled_set/example_join.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_join.cpp +[ 63%] Linking CXX executable ../bin/demo_tutorial_iterators_sequence_iterator_demo +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/link.d CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/tutorial/iterators/sequence_iterator_demo.cpp.o -o ../bin/demo_tutorial_iterators_sequence_iterator_demo -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 63%] Built target demo_tutorial_iterators_sequence_iterator_demo @@ -208935,8 +208971,7 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/tutorial/journaled_set/example_journal_string_basic.cpp.o -MF CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/tutorial/journaled_set/example_journal_string_basic.cpp.o.d -o CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/tutorial/journaled_set/example_journal_string_basic.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_journal_string_basic.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_journal_string_basic.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_join.cpp:3: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -208947,7 +208982,7 @@ from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:46: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_join.cpp:2: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -209025,75 +209060,10 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 392 | return _beginDefault(me, tag_); - | ~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 515 | return begin(cont, Rooted()); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' - 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' - 789 | write(it, source); - | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence_journaled/sequence_journaled.h:385:20: required from 'TStream& seqan::operator<<(TStream&, const String >&) [with TStream = std::basic_ostream; TValue = char; THostSpec = Alloc<>; TJournalSpec = SortedArray; TBufferSpec = Alloc<>]' - 385 | stream << infix(s._insertionBuffer, value(it).physicalPosition, value(it).physicalPosition + value(it).length); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_journal_string_basic.cpp:22:33: required from here - 22 | std::cout << "Journal: " << journalStr << std::endl; - | ^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 351 | return TIterator(me, begin(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:61: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' - 116 | Iter(typename Parameter_::Type container_, TIterator it_) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' - 117 | : data_container(_toPointer(container_)), - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: required from 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]' - 351 | return TIterator(me, begin(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 392 | return _beginDefault(me, tag_); - | ~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 515 | return begin(cont, Rooted()); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' - 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' - 789 | write(it, source); - | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence_journaled/sequence_journaled.h:385:20: required from 'TStream& seqan::operator<<(TStream&, const String >&) [with TStream = std::basic_ostream; TValue = char; THostSpec = Alloc<>; TJournalSpec = SortedArray; TBufferSpec = Alloc<>]' - 385 | stream << infix(s._insertionBuffer, value(it).physicalPosition, value(it).physicalPosition + value(it).length); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_journal_string_basic.cpp:22:33: required from here - 22 | std::cout << "Journal: " << journalStr << std::endl; - | ^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_join.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_journal_string_basic.cpp:2: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -209104,7 +209074,7 @@ from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_join.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:46: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -209182,6 +209152,72 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 392 | return _beginDefault(me, tag_); + | ~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 515 | return begin(cont, Rooted()); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' + 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' + 789 | write(it, source); + | ~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence_journaled/sequence_journaled.h:385:20: required from 'TStream& seqan::operator<<(TStream&, const String >&) [with TStream = std::basic_ostream; TValue = char; THostSpec = Alloc<>; TJournalSpec = SortedArray; TBufferSpec = Alloc<>]' + 385 | stream << infix(s._insertionBuffer, value(it).physicalPosition, value(it).physicalPosition + value(it).length); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_journal_string_basic.cpp:22:33: required from here + 22 | std::cout << "Journal: " << journalStr << std::endl; + | ^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 351 | return TIterator(me, begin(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:61: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' + 116 | Iter(typename Parameter_::Type container_, TIterator it_) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' + 117 | : data_container(_toPointer(container_)), + | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: required from 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]' + 351 | return TIterator(me, begin(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 392 | return _beginDefault(me, tag_); + | ~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 515 | return begin(cont, Rooted()); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' + 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' + 789 | write(it, source); + | ~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence_journaled/sequence_journaled.h:385:20: required from 'TStream& seqan::operator<<(TStream&, const String >&) [with TStream = std::basic_ostream; TValue = char; THostSpec = Alloc<>; TJournalSpec = SortedArray; TBufferSpec = Alloc<>]' + 385 | stream << infix(s._insertionBuffer, value(it).physicalPosition, value(it).physicalPosition + value(it).length); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_journal_string_basic.cpp:22:33: required from here + 22 | std::cout << "Journal: " << journalStr << std::endl; + | ^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -209379,8 +209415,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -[ 63%] Linking CXX executable ../bin/demo_tutorial_journaled_set_example_journal_string_basic -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' 117 | : data_container(_toPointer(container_)), @@ -209412,6 +209446,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +[ 63%] Linking CXX executable ../bin/demo_tutorial_journaled_set_example_journal_string_basic +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/link.d CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/tutorial/journaled_set/example_journal_string_basic.cpp.o -o ../bin/demo_tutorial_journaled_set_example_journal_string_basic -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 63%] Built target demo_tutorial_journaled_set_example_journal_string_basic @@ -210249,11 +210285,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -[ 63%] Linking CXX executable ../bin/demo_tutorial_journaled_set_example_online_search -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/link.d CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/tutorial/journaled_set/example_online_search.cpp.o -o ../bin/demo_tutorial_journaled_set_example_online_search -lrt -lz -lbz2 +[ 63%] Linking CXX executable ../bin/demo_tutorial_journaled_set_example_online_search_assignment1_hint +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/link.d CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/tutorial/journaled_set/example_online_search_assignment1_hint.cpp.o -o ../bin/demo_tutorial_journaled_set_example_online_search_assignment1_hint -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 63%] Built target demo_tutorial_journaled_set_example_online_search +[ 63%] Built target demo_tutorial_journaled_set_example_online_search_assignment1_hint make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/DependInfo.cmake "--color=" @@ -210262,11 +210298,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 63%] Building CXX object demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/tutorial/journaled_set/solution_online_search_assignment1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/tutorial/journaled_set/solution_online_search_assignment1.cpp.o -MF CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/tutorial/journaled_set/solution_online_search_assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/tutorial/journaled_set/solution_online_search_assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment1.cpp -[ 63%] Linking CXX executable ../bin/demo_tutorial_journaled_set_example_online_search_assignment1_hint -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/link.d CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/tutorial/journaled_set/example_online_search_assignment1_hint.cpp.o -o ../bin/demo_tutorial_journaled_set_example_online_search_assignment1_hint -lrt -lz -lbz2 +[ 63%] Linking CXX executable ../bin/demo_tutorial_journaled_set_example_online_search +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/link.d CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/tutorial/journaled_set/example_online_search.cpp.o -o ../bin/demo_tutorial_journaled_set_example_online_search -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 63%] Built target demo_tutorial_journaled_set_example_online_search_assignment1_hint +[ 63%] Built target demo_tutorial_journaled_set_example_online_search make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/DependInfo.cmake "--color=" @@ -210572,6 +210608,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -210620,19 +210669,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -210683,6 +210719,45 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -210709,6 +210784,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -210778,52 +210860,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -213113,11 +213149,11 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 64%] Linking CXX executable ../bin/demo_tutorial_metafunctions_assignment1_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/link.d CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/tutorial/metafunctions/assignment1_solution.cpp.o -o ../bin/demo_tutorial_metafunctions_assignment1_solution -lrt -lz -lbz2 +[ 64%] Linking CXX executable ../bin/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/link.d CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.o -o ../bin/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 64%] Built target demo_tutorial_metafunctions_assignment1_solution +[ 64%] Built target demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 make -f demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/DependInfo.cmake "--color=" @@ -213126,11 +213162,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 64%] Building CXX object demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/tutorial/metafunctions/base.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/tutorial/metafunctions/base.cpp.o -MF CMakeFiles/demo_tutorial_metafunctions_base.dir/tutorial/metafunctions/base.cpp.o.d -o CMakeFiles/demo_tutorial_metafunctions_base.dir/tutorial/metafunctions/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/metafunctions/base.cpp -[ 64%] Linking CXX executable ../bin/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/link.d CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.o -o ../bin/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 -lrt -lz -lbz2 +[ 64%] Linking CXX executable ../bin/demo_tutorial_metafunctions_assignment1_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/link.d CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/tutorial/metafunctions/assignment1_solution.cpp.o -o ../bin/demo_tutorial_metafunctions_assignment1_solution -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 64%] Built target demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 +[ 64%] Built target demo_tutorial_metafunctions_assignment1_solution make -f demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/DependInfo.cmake "--color=" @@ -213224,6 +213260,8 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 64%] Linking CXX executable ../bin/demo_tutorial_metafunctions_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_metafunctions_base.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -213231,8 +213269,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 64%] Linking CXX executable ../bin/demo_tutorial_metafunctions_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_metafunctions_base.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_metafunctions_base.dir/link.d CMakeFiles/demo_tutorial_metafunctions_base.dir/tutorial/metafunctions/base.cpp.o -o ../bin/demo_tutorial_metafunctions_base -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 64%] Built target demo_tutorial_metafunctions_base @@ -213441,14 +213477,14 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 65%] Linking CXX executable ../bin/demo_tutorial_modifiers_assignment1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_assignment1.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1_solution.cpp:8:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 8 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 65%] Linking CXX executable ../bin/demo_tutorial_modifiers_assignment1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_assignment1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_assignment1.dir/link.d CMakeFiles/demo_tutorial_modifiers_assignment1.dir/tutorial/modifiers/assignment1.cpp.o -o ../bin/demo_tutorial_modifiers_assignment1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 65%] Built target demo_tutorial_modifiers_assignment1 @@ -213665,23 +213701,23 @@ | ^~~~~~~~~~~~~~ [ 65%] Linking CXX executable ../bin/demo_tutorial_modifiers_modreverse cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_modreverse.dir/link.txt --verbose=1 +[ 65%] Linking CXX executable ../bin/demo_tutorial_modifiers_modview +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_modview.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_modreverse.dir/link.d CMakeFiles/demo_tutorial_modifiers_modreverse.dir/tutorial/modifiers/modreverse.cpp.o -o ../bin/demo_tutorial_modifiers_modreverse -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 65%] Built target demo_tutorial_modifiers_modreverse make -f demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_modview.dir/link.d CMakeFiles/demo_tutorial_modifiers_modview.dir/tutorial/modifiers/modview.cpp.o -o ../bin/demo_tutorial_modifiers_modview -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 65%] Building CXX object demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o -MF CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o.d -o CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/nested.cpp -[ 65%] Linking CXX executable ../bin/demo_tutorial_modifiers_modview -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_modview.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_modview.dir/link.d CMakeFiles/demo_tutorial_modifiers_modview.dir/tutorial/modifiers/modview.cpp.o -o ../bin/demo_tutorial_modifiers_modview -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 65%] Built target demo_tutorial_modifiers_modview make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/depend +[ 65%] Building CXX object demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o -MF CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o.d -o CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/nested.cpp make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -213781,19 +213817,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 65%] Linking CXX executable ../bin/demo_tutorial_modifiers_nested -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_nested.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_nested.dir/link.d CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o -o ../bin/demo_tutorial_modifiers_nested -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 65%] Built target demo_tutorial_modifiers_nested -make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 67%] Building CXX object demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o -MF CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o.d -o CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/consensus.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/assignment1.cpp:3: @@ -213939,6 +213962,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps, seqan::Alloc<> >, seqan::Tag >]' 91 | Iter(Iter const & other) : | ^~~~ +[ 65%] Linking CXX executable ../bin/demo_tutorial_modifiers_nested +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_nested.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_nested.dir/link.d CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o -o ../bin/demo_tutorial_modifiers_nested -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 65%] Built target demo_tutorial_modifiers_nested +make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 67%] Building CXX object demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o -MF CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o.d -o CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/consensus.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:56: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervalsExcludeTouching(String&, const Graph&, const TPropertyMap&, TValue) [with TSpec = Directed >; TPropertyMap = String > > > >; TValue = long unsigned int; TCargo = Pair >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align/graph_algorithm_refine_exact_iterative.h:571:49: required from 'void seqan::matchRefinement(TAlignmentString&, StringSet&, TScore&, TOutGraph&, typename Size::Type>::Type, TAnnotation&, Tag) [with TAlignmentString = String >; TAnnotation = bool; TOutGraph = Graph, Alloc<> >, Dependent > >, long unsigned int, Tag > >; TSequence = String, Alloc<> >; TSetSpec = Dependent >; TScore = long unsigned int; TTagSpec = TagExactRefinement_; typename Size::Type>::Type = long unsigned int; typename Value::Type = Fragment<>]' @@ -214225,19 +214261,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 67%] Building CXX object demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/tutorial/multiple_sequence_alignment/msa.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/tutorial/multiple_sequence_alignment/msa.cpp.o -MF CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/tutorial/multiple_sequence_alignment/msa.cpp.o.d -o CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/tutorial/multiple_sequence_alignment/msa.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/msa.cpp -[ 67%] Linking CXX executable ../bin/demo_tutorial_multiple_sequence_alignment_consensus -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/link.d CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o -o ../bin/demo_tutorial_multiple_sequence_alignment_consensus -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 67%] Built target demo_tutorial_multiple_sequence_alignment_consensus -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 67%] Building CXX object demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_banded.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/msa.cpp:3: @@ -214383,6 +214406,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps, seqan::Alloc<> >, seqan::Tag >]' 91 | Iter(Iter const & other) : | ^~~~ +[ 67%] Linking CXX executable ../bin/demo_tutorial_multiple_sequence_alignment_consensus +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:56: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervalsExcludeTouching(String&, const Graph&, const TPropertyMap&, TValue) [with TSpec = Directed >; TPropertyMap = String > > > >; TValue = long unsigned int; TCargo = Pair >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align/graph_algorithm_refine_exact_iterative.h:571:49: required from 'void seqan::matchRefinement(TAlignmentString&, StringSet&, TScore&, TOutGraph&, typename Size::Type>::Type, TAnnotation&, Tag) [with TAlignmentString = String >; TAnnotation = bool; TOutGraph = Graph, Alloc<> >, Dependent > >, long unsigned int, Tag > >; TSequence = String, Alloc<> >; TSetSpec = Dependent >; TScore = long unsigned int; TTagSpec = TagExactRefinement_; typename Size::Type>::Type = long unsigned int; typename Value::Type = Fragment<>]' @@ -214424,6 +214449,17 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > > >' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' 288 | IntervalTreeNode(IntervalTreeNode const & other) : | ^~~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/link.d CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o -o ../bin/demo_tutorial_multiple_sequence_alignment_consensus -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 67%] Built target demo_tutorial_multiple_sequence_alignment_consensus +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 67%] Building CXX object demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_banded.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_banded.cpp:3: @@ -214547,6 +214583,17 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const long unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = long unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ [ 67%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_banded cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_banded -lrt -lz -lbz2 @@ -214560,17 +214607,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 67%] Building CXX object demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const long unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = long unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp:3: @@ -214855,6 +214891,8 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 67%] Building CXX object demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp +[ 67%] Linking CXX executable ../bin/demo_tutorial_multiple_sequence_alignment_msa +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp:3: @@ -214958,6 +214996,8 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/link.d CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/tutorial/multiple_sequence_alignment/msa.cpp.o -o ../bin/demo_tutorial_multiple_sequence_alignment_msa -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 63 | struct LessPairI1_ : public std::unary_function, bool> @@ -214965,8 +215005,7 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 67%] Linking CXX executable ../bin/demo_tutorial_multiple_sequence_alignment_msa -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/link.txt --verbose=1 +[ 67%] Built target demo_tutorial_multiple_sequence_alignment_msa In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -214980,9 +215019,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/link.d CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/tutorial/multiple_sequence_alignment/msa.cpp.o -o ../bin/demo_tutorial_multiple_sequence_alignment_msa -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 67%] Built target demo_tutorial_multiple_sequence_alignment_msa make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/DependInfo.cmake "--color=" @@ -215335,11 +215371,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = seqan::Matrix]' 105 | Iter(Iter const & other_) : | ^~~~ +[ 68%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/tutorial/pairwise_sequence_alignment/alignment_global_overlap.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 68%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/tutorial/pairwise_sequence_alignment/alignment_global_specialised.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 68%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised +[ 68%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/DependInfo.cmake "--color=" @@ -215348,11 +215386,9 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 68%] Building CXX object demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp -[ 68%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/tutorial/pairwise_sequence_alignment/alignment_global_overlap.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/tutorial/pairwise_sequence_alignment/alignment_global_specialised.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 68%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap +[ 68%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/DependInfo.cmake "--color=" @@ -215471,6 +215507,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local.cpp:3: @@ -215555,19 +215604,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -216656,6 +216692,34 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step3.cpp:3: @@ -216740,21 +216804,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -216766,19 +216815,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -216943,6 +216979,33 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp:66:42: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] + 66 | itGapsPattern = begin(gapsPattern); + | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:86: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]' + 91 | Iter(Iter const & other) : + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp:67:36: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] + 67 | itGapsEnd = end(gapsPattern); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]' + 91 | Iter(Iter const & other) : + | ^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp:3: @@ -216990,25 +217053,12 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 246 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 255 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ @@ -217051,20 +217101,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp:66:42: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] - 66 | itGapsPattern = begin(gapsPattern); - | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:86: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]' - 91 | Iter(Iter const & other) : - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp:67:36: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] - 67 | itGapsEnd = end(gapsPattern); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]' - 91 | Iter(Iter const & other) : - | ^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -217134,10 +217170,8 @@ [ 69%] Building CXX object demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/tutorial/parsing_command_line_arguments/assignment2_solution.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/tutorial/parsing_command_line_arguments/assignment2_solution.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/tutorial/parsing_command_line_arguments/assignment2_solution.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/tutorial/parsing_command_line_arguments/assignment2_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/assignment2_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:46, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/assignment2_solution.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp:3: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -217148,7 +217182,7 @@ from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/assignment2_solution.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp:2: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -217219,16 +217253,64 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp:66:42: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] + 66 | itGapsPattern = begin(gapsPattern); + | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:86: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]' + 91 | Iter(Iter const & other) : + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp:67:36: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] + 67 | itGapsEnd = end(gapsPattern); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]' + 91 | Iter(Iter const & other) : + | ^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:46, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/assignment2_solution.cpp:3: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -217239,7 +217321,7 @@ from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/assignment2_solution.cpp:1: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -217310,59 +217392,13 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp:66:42: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] - 66 | itGapsPattern = begin(gapsPattern); - | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:86: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]' - 91 | Iter(Iter const & other) : - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp:67:36: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] - 67 | itGapsEnd = end(gapsPattern); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]' - 91 | Iter(Iter const & other) : - | ^~~~ [ 69%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step6 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step6 -lrt -lz -lbz2 @@ -217906,8 +217942,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 70%] Building CXX object demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/tutorial/parsing_command_line_arguments/example1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/tutorial/parsing_command_line_arguments/example1.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/tutorial/parsing_command_line_arguments/example1.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/tutorial/parsing_command_line_arguments/example1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/example1.cpp -[ 70%] Linking CXX executable ../bin/demo_tutorial_parsing_command_line_arguments_assignment6_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -218001,6 +218035,8 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 70%] Linking CXX executable ../bin/demo_tutorial_parsing_command_line_arguments_assignment6_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/link.d CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/tutorial/parsing_command_line_arguments/assignment6_solution.cpp.o -o ../bin/demo_tutorial_parsing_command_line_arguments_assignment6_solution -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 70%] Built target demo_tutorial_parsing_command_line_arguments_assignment6_solution @@ -218118,19 +218154,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 71%] Building CXX object demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/tutorial/parsing_command_line_arguments/example_with_modifyString.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/tutorial/parsing_command_line_arguments/example_with_modifyString.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/tutorial/parsing_command_line_arguments/example_with_modifyString.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/tutorial/parsing_command_line_arguments/example_with_modifyString.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/example_with_modifyString.cpp -[ 71%] Linking CXX executable ../bin/demo_tutorial_parsing_command_line_arguments_example1_detailed -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/link.d CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/tutorial/parsing_command_line_arguments/example1_detailed.cpp.o -o ../bin/demo_tutorial_parsing_command_line_arguments_example1_detailed -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 71%] Built target demo_tutorial_parsing_command_line_arguments_example1_detailed -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 71%] Building CXX object demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/example_with_own_function.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -218224,6 +218247,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 71%] Linking CXX executable ../bin/demo_tutorial_parsing_command_line_arguments_example1_detailed +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/link.d CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/tutorial/parsing_command_line_arguments/example1_detailed.cpp.o -o ../bin/demo_tutorial_parsing_command_line_arguments_example1_detailed -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 71%] Built target demo_tutorial_parsing_command_line_arguments_example1_detailed +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 71%] Building CXX object demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/example_with_own_function.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -218330,19 +218366,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 71%] Building CXX object demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/tutorial/parsing_command_line_arguments/example_with_struct.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/tutorial/parsing_command_line_arguments/example_with_struct.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/tutorial/parsing_command_line_arguments/example_with_struct.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/tutorial/parsing_command_line_arguments/example_with_struct.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/example_with_struct.cpp -[ 71%] Linking CXX executable ../bin/demo_tutorial_parsing_command_line_arguments_example_with_own_function -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/link.d CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o -o ../bin/demo_tutorial_parsing_command_line_arguments_example_with_own_function -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 71%] Built target demo_tutorial_parsing_command_line_arguments_example_with_own_function -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 71%] Building CXX object demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/final_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -218436,6 +218459,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 71%] Linking CXX executable ../bin/demo_tutorial_parsing_command_line_arguments_example_with_own_function +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/link.d CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o -o ../bin/demo_tutorial_parsing_command_line_arguments_example_with_own_function -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 71%] Built target demo_tutorial_parsing_command_line_arguments_example_with_own_function +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 71%] Building CXX object demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/final_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -218529,13 +218565,11 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 71%] Linking CXX executable ../bin/demo_tutorial_parsing_command_line_arguments_final_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/link.txt --verbose=1 [ 71%] Linking CXX executable ../bin/demo_tutorial_parsing_command_line_arguments_example_with_struct cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/link.d CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o -o ../bin/demo_tutorial_parsing_command_line_arguments_final_solution -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/link.d CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/tutorial/parsing_command_line_arguments/example_with_struct.cpp.o -o ../bin/demo_tutorial_parsing_command_line_arguments_example_with_struct -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 71%] Built target demo_tutorial_parsing_command_line_arguments_final_solution +[ 71%] Built target demo_tutorial_parsing_command_line_arguments_example_with_struct make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/DependInfo.cmake "--color=" @@ -218544,17 +218578,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 71%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/tutorial/pattern_matching/assignment1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/tutorial/pattern_matching/assignment1.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/tutorial/pattern_matching/assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/tutorial/pattern_matching/assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1.cpp -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/link.d CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/tutorial/parsing_command_line_arguments/example_with_struct.cpp.o -o ../bin/demo_tutorial_parsing_command_line_arguments_example_with_struct -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 71%] Built target demo_tutorial_parsing_command_line_arguments_example_with_struct -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1.cpp:2: @@ -218639,6 +218662,57 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +[ 71%] Linking CXX executable ../bin/demo_tutorial_parsing_command_line_arguments_final_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/link.d CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o -o ../bin/demo_tutorial_parsing_command_line_arguments_final_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 71%] Built target demo_tutorial_parsing_command_line_arguments_final_solution +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1_solution.cpp +[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/tutorial/pattern_matching/assignment1.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Built target demo_tutorial_pattern_matching_assignment1 +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1_solution.cpp:2: @@ -218733,31 +218807,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -218773,23 +218822,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/tutorial/pattern_matching/assignment1.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Built target demo_tutorial_pattern_matching_assignment1 -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2.cpp -[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment1_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment1_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2.cpp:3: @@ -218867,7 +218899,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 72%] Built target demo_tutorial_pattern_matching_assignment1_solution In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -218875,14 +218906,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -218908,6 +218931,32 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment1_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment1_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Built target demo_tutorial_pattern_matching_assignment1_solution +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2_solution.cpp +[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Built target demo_tutorial_pattern_matching_assignment2 +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/tutorial/pattern_matching/assignment3.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/tutorial/pattern_matching/assignment3.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/tutorial/pattern_matching/assignment3.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/tutorial/pattern_matching/assignment3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2_solution.cpp:2: @@ -218992,57 +219041,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/link.txt --verbose=1 -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Built target demo_tutorial_pattern_matching_assignment2 -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/tutorial/pattern_matching/assignment3.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/tutorial/pattern_matching/assignment3.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/tutorial/pattern_matching/assignment3.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/tutorial/pattern_matching/assignment3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment2_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment2_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Built target demo_tutorial_pattern_matching_assignment2_solution -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -219193,6 +219191,31 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -219443,6 +219466,65 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:72, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h: In instantiation of 'typename seqan::DisableIf > >::Type seqan::assign(TTarget&, TSource&) [with TTarget = Index >, IndexQGram, Tag > >; TSource = Index >, IndexQGram, Tag > >; typename DisableIf > >::Type = void]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:645:15: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Index >, IndexQGram, Tag > >; TValue2 = Index >, IndexQGram, Tag > >]' + 645 | assign(_dataValue(me), value_); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:594:19: required from 'void seqan::create(Holder >&) [with TValue = Index >, IndexQGram, Tag > >]' + 594 | create(me, _dataValue(me)); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:863:15: required from 'typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, IndexQGram, Tag > >; typename Reference > >::Type = Index >, IndexQGram, Tag > >&]' + 863 | create(me); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h:115:21: required from 'typename seqan::Parameter_ >::Type seqan::container(Finder, TSpecFinder>&) [with TText = String >; TSpec = IndexQGram, Tag >; TSpecFinder = const Tag; typename Parameter_ >::Type = Index >, IndexQGram, Tag > >&]' + 115 | return value(me.index); + | ~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_base.h:904:21: required from 'typename seqan::Parameter_::Type>::Type seqan::haystack(TObject&) [with TObject = Finder >, IndexQGram, Tag > > >; typename Parameter_::Type>::Type = Index >, IndexQGram, Tag > >&; typename Haystack::Type = Index >, IndexQGram, Tag > >]' + 904 | return container(obj); + | ~~~~~~~~~^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_base.h:569:26: required from 'typename seqan::InfixOnValue::Type seqan::infix(Finder&) [with THaystack = Index >, IndexQGram, Tag > >; TSpec = const Tag; typename InfixOnValue::Type = Segment >, InfixSegment>]' + 569 | return infix(haystack(me), beginPosition(me), endPosition(me)); + | ~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3.cpp:18:98: required from here + 18 | std::cout << '[' << beginPosition(finder) << ',' << endPosition(finder) << ")\t" << infix(finder) << std::endl; + | ~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h:110:12: warning: implicitly-declared 'seqan::Index >, seqan::IndexQGram, seqan::Tag > >& seqan::Index >, seqan::IndexQGram, seqan::Tag > >::operator=(const seqan::Index >, seqan::IndexQGram, seqan::Tag > >&)' is deprecated [-Wdeprecated-copy] + 110 | target = source; + | ~~~~~~~^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram_openaddressing.h:143:9: note: because 'seqan::Index >, seqan::IndexQGram, seqan::Tag > >' has user-provided 'seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::String >; TShapeSpec = seqan::UngappedShape<4>]' + 143 | Index(Index const &other): + | ^~~~~ +[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment2_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment2_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Built target demo_tutorial_pattern_matching_assignment2_solution +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3_solution.cpp +[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/tutorial/pattern_matching/assignment3.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment3 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Built target demo_tutorial_pattern_matching_assignment3 +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_approx.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -219529,39 +219611,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:72, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h: In instantiation of 'typename seqan::DisableIf > >::Type seqan::assign(TTarget&, TSource&) [with TTarget = Index >, IndexQGram, Tag > >; TSource = Index >, IndexQGram, Tag > >; typename DisableIf > >::Type = void]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:645:15: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Index >, IndexQGram, Tag > >; TValue2 = Index >, IndexQGram, Tag > >]' - 645 | assign(_dataValue(me), value_); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:594:19: required from 'void seqan::create(Holder >&) [with TValue = Index >, IndexQGram, Tag > >]' - 594 | create(me, _dataValue(me)); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:863:15: required from 'typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, IndexQGram, Tag > >; typename Reference > >::Type = Index >, IndexQGram, Tag > >&]' - 863 | create(me); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h:115:21: required from 'typename seqan::Parameter_ >::Type seqan::container(Finder, TSpecFinder>&) [with TText = String >; TSpec = IndexQGram, Tag >; TSpecFinder = const Tag; typename Parameter_ >::Type = Index >, IndexQGram, Tag > >&]' - 115 | return value(me.index); - | ~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_base.h:904:21: required from 'typename seqan::Parameter_::Type>::Type seqan::haystack(TObject&) [with TObject = Finder >, IndexQGram, Tag > > >; typename Parameter_::Type>::Type = Index >, IndexQGram, Tag > >&; typename Haystack::Type = Index >, IndexQGram, Tag > >]' - 904 | return container(obj); - | ~~~~~~~~~^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_base.h:569:26: required from 'typename seqan::InfixOnValue::Type seqan::infix(Finder&) [with THaystack = Index >, IndexQGram, Tag > >; TSpec = const Tag; typename InfixOnValue::Type = Segment >, InfixSegment>]' - 569 | return infix(haystack(me), beginPosition(me), endPosition(me)); - | ~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3.cpp:18:98: required from here - 18 | std::cout << '[' << beginPosition(finder) << ',' << endPosition(finder) << ")\t" << infix(finder) << std::endl; - | ~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h:110:12: warning: implicitly-declared 'seqan::Index >, seqan::IndexQGram, seqan::Tag > >& seqan::Index >, seqan::IndexQGram, seqan::Tag > >::operator=(const seqan::Index >, seqan::IndexQGram, seqan::Tag > >&)' is deprecated [-Wdeprecated-copy] - 110 | target = source; - | ~~~~~~~^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram_openaddressing.h:143:9: note: because 'seqan::Index >, seqan::IndexQGram, seqan::Tag > >' has user-provided 'seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::String >; TShapeSpec = seqan::UngappedShape<4>]' - 143 | Index(Index const &other): - | ^~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -219876,55 +219925,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:72, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h: In instantiation of 'typename seqan::DisableIf > >::Type seqan::assign(TTarget&, TSource&) [with TTarget = Index >, IndexQGram, Tag > >; TSource = Index >, IndexQGram, Tag > >; typename DisableIf > >::Type = void]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:645:15: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Index >, IndexQGram, Tag > >; TValue2 = Index >, IndexQGram, Tag > >]' - 645 | assign(_dataValue(me), value_); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:594:19: required from 'void seqan::create(Holder >&) [with TValue = Index >, IndexQGram, Tag > >]' - 594 | create(me, _dataValue(me)); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:863:15: required from 'typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, IndexQGram, Tag > >; typename Reference > >::Type = Index >, IndexQGram, Tag > >&]' - 863 | create(me); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h:115:21: required from 'typename seqan::Parameter_ >::Type seqan::container(Finder, TSpecFinder>&) [with TText = String >; TSpec = IndexQGram, Tag >; TSpecFinder = const Tag; typename Parameter_ >::Type = Index >, IndexQGram, Tag > >&]' - 115 | return value(me.index); - | ~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_base.h:904:21: required from 'typename seqan::Parameter_::Type>::Type seqan::haystack(TObject&) [with TObject = Finder >, IndexQGram, Tag > > >; typename Parameter_::Type>::Type = Index >, IndexQGram, Tag > >&; typename Haystack::Type = Index >, IndexQGram, Tag > >]' - 904 | return container(obj); - | ~~~~~~~~~^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_base.h:569:26: required from 'typename seqan::InfixOnValue::Type seqan::infix(Finder&) [with THaystack = Index >, IndexQGram, Tag > >; TSpec = const Tag; typename InfixOnValue::Type = Segment >, InfixSegment>]' - 569 | return infix(haystack(me), beginPosition(me), endPosition(me)); - | ~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3_solution.cpp:13:98: required from here - 13 | std::cout << '[' << beginPosition(finder) << ',' << endPosition(finder) << ")\t" << infix(finder) << std::endl; - | ~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h:110:12: warning: implicitly-declared 'seqan::Index >, seqan::IndexQGram, seqan::Tag > >& seqan::Index >, seqan::IndexQGram, seqan::Tag > >::operator=(const seqan::Index >, seqan::IndexQGram, seqan::Tag > >&)' is deprecated [-Wdeprecated-copy] - 110 | target = source; - | ~~~~~~~^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram_openaddressing.h:143:9: note: because 'seqan::Index >, seqan::IndexQGram, seqan::Tag > >' has user-provided 'seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::String >; TShapeSpec = seqan::UngappedShape<4>]' - 143 | Index(Index const &other): - | ^~~~~ -[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/tutorial/pattern_matching/assignment3.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment3 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Built target demo_tutorial_pattern_matching_assignment3 -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_approx.cpp -[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment3_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment3_solution -lrt -lz -lbz2 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_approx.cpp:3: @@ -219954,7 +219954,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 219 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ @@ -220003,10 +220002,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 72%] Built target demo_tutorial_pattern_matching_assignment3_solution -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -220014,11 +220009,39 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_exact.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:72, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h: In instantiation of 'typename seqan::DisableIf > >::Type seqan::assign(TTarget&, TSource&) [with TTarget = Index >, IndexQGram, Tag > >; TSource = Index >, IndexQGram, Tag > >; typename DisableIf > >::Type = void]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:645:15: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Index >, IndexQGram, Tag > >; TValue2 = Index >, IndexQGram, Tag > >]' + 645 | assign(_dataValue(me), value_); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:594:19: required from 'void seqan::create(Holder >&) [with TValue = Index >, IndexQGram, Tag > >]' + 594 | create(me, _dataValue(me)); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:863:15: required from 'typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, IndexQGram, Tag > >; typename Reference > >::Type = Index >, IndexQGram, Tag > >&]' + 863 | create(me); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h:115:21: required from 'typename seqan::Parameter_ >::Type seqan::container(Finder, TSpecFinder>&) [with TText = String >; TSpec = IndexQGram, Tag >; TSpecFinder = const Tag; typename Parameter_ >::Type = Index >, IndexQGram, Tag > >&]' + 115 | return value(me.index); + | ~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_base.h:904:21: required from 'typename seqan::Parameter_::Type>::Type seqan::haystack(TObject&) [with TObject = Finder >, IndexQGram, Tag > > >; typename Parameter_::Type>::Type = Index >, IndexQGram, Tag > >&; typename Haystack::Type = Index >, IndexQGram, Tag > >]' + 904 | return container(obj); + | ~~~~~~~~~^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_base.h:569:26: required from 'typename seqan::InfixOnValue::Type seqan::infix(Finder&) [with THaystack = Index >, IndexQGram, Tag > >; TSpec = const Tag; typename InfixOnValue::Type = Segment >, InfixSegment>]' + 569 | return infix(haystack(me), beginPosition(me), endPosition(me)); + | ~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3_solution.cpp:13:98: required from here + 13 | std::cout << '[' << beginPosition(finder) << ',' << endPosition(finder) << ")\t" << infix(finder) << std::endl; + | ~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h:110:12: warning: implicitly-declared 'seqan::Index >, seqan::IndexQGram, seqan::Tag > >& seqan::Index >, seqan::IndexQGram, seqan::Tag > >::operator=(const seqan::Index >, seqan::IndexQGram, seqan::Tag > >&)' is deprecated [-Wdeprecated-copy] + 110 | target = source; + | ~~~~~~~^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram_openaddressing.h:143:9: note: because 'seqan::Index >, seqan::IndexQGram, seqan::Tag > >' has user-provided 'seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::String >; TShapeSpec = seqan::UngappedShape<4>]' + 143 | Index(Index const &other): + | ^~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -220044,6 +220067,32 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment3_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment3_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Built target demo_tutorial_pattern_matching_assignment3_solution +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_exact.cpp +[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_find_approx +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o -o ../bin/demo_tutorial_pattern_matching_find_approx -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Built target demo_tutorial_pattern_matching_find_approx +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_exact.cpp:3: @@ -220128,46 +220177,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_find_approx -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/link.txt --verbose=1 -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o -o ../bin/demo_tutorial_pattern_matching_find_approx -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Built target demo_tutorial_pattern_matching_find_approx -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -[ 73%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_find_exact -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -220247,8 +220256,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o -o ../bin/demo_tutorial_pattern_matching_find_exact -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -220256,15 +220263,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 73%] Built target demo_tutorial_pattern_matching_find_exact -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 73%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index_multiple.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -220329,6 +220327,31 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -220579,6 +220602,8 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 73%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_find_exact +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:72, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74, @@ -220612,6 +220637,17 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:429:9: note: because 'seqan::Index > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::String >; TSpec = void]' 429 | Index(Index const &other): | ^~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o -o ../bin/demo_tutorial_pattern_matching_find_exact -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 73%] Built target demo_tutorial_pattern_matching_find_exact +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 73%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index_multiple.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -220778,6 +220814,8 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 73%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_find_index +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -221012,6 +221050,17 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o -o ../bin/demo_tutorial_pattern_matching_find_index -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 73%] Built target demo_tutorial_pattern_matching_find_index +make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 73%] Building CXX object demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o -MF CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o.d -o CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment5.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:72, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74, @@ -221064,17 +221113,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:429:9: note: because 'seqan::Index > > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >; TSpec = void]' 429 | Index(Index const &other): | ^~~~~ -[ 73%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_find_index -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o -o ../bin/demo_tutorial_pattern_matching_find_index -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 73%] Built target demo_tutorial_pattern_matching_find_index -make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -221115,8 +221153,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -[ 73%] Building CXX object demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o -MF CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o.d -o CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment5.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:56: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' @@ -221728,6 +221764,92 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment5.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment5.cpp:2: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > >]' 881 | writer->push(Val_); @@ -221769,6 +221891,32 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' 332 | return processBuffer(*chain.first, *this); @@ -221822,6 +221970,44 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]' 622 | if (handler1) handler1->push(Val_); @@ -222010,156 +222196,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment5.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment5.cpp:2: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -223661,13 +223697,11 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 73%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_find_index_multiple -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/link.txt --verbose=1 [ 74%] Linking CXX executable ../bin/demo_tutorial_q_gram_index_index_qgram_hash cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o -o ../bin/demo_tutorial_pattern_matching_find_index_multiple -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/link.d CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/tutorial/q_gram_index/index_qgram_hash.cpp.o -o ../bin/demo_tutorial_q_gram_index_index_qgram_hash -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Built target demo_tutorial_pattern_matching_find_index_multiple +[ 74%] Built target demo_tutorial_q_gram_index_index_qgram_hash make -f demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step1.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step1.dir/DependInfo.cmake "--color=" @@ -223676,17 +223710,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 74%] Building CXX object demos/CMakeFiles/demo_tutorial_realignment_step1.dir/tutorial/realignment/step1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_realignment_step1.dir/tutorial/realignment/step1.cpp.o -MF CMakeFiles/demo_tutorial_realignment_step1.dir/tutorial/realignment/step1.cpp.o.d -o CMakeFiles/demo_tutorial_realignment_step1.dir/tutorial/realignment/step1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/link.d CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/tutorial/q_gram_index/index_qgram_hash.cpp.o -o ../bin/demo_tutorial_q_gram_index_index_qgram_hash -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Built target demo_tutorial_q_gram_index_index_qgram_hash -make -f demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Building CXX object demos/CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o -MF CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o.d -o CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -223786,120 +223809,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:1: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:36: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -223908,19 +223817,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 63 | struct LessPairI1_ : public std::unary_function, bool> @@ -223949,14 +223845,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -224024,133 +223912,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/overlap_info_computation.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:65: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa.h:44, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:2: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa/graph_align_tcoffee_base.h:304:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 304 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_library.h:88:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 88 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_library.h:99:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 99 | public std::unary_function >, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/overlap_info_computation.h:38, @@ -224173,39 +223934,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 666 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 351 | struct insertBucket : public std::unary_function @@ -224213,36 +223941,12 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 714 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 782 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 457 | struct insertBucket : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 851 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 885 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, @@ -224262,182 +223966,12 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 933 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 321 | struct insertBucket : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1814 | struct _qgramComp : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1833 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 46 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 85 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 98 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 112 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 127 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 110 | public std::binary_function < SkewDCStream, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 143 | public std::binary_function < SkewDCStream >, Pack> >, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 99 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 118 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 132 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 175 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 185 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | struct _skew7NCompMulti : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 97 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 141 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 59 | struct _mapInverse : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 164 | struct _mapInverseMulti : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -224464,6 +223998,8 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 74%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_find_index_multiple +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -224665,13 +224201,17 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o -o ../bin/demo_tutorial_pattern_matching_find_index_multiple -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 74%] Built target demo_tutorial_pattern_matching_find_index_multiple +make -f demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 74%] Building CXX object demos/CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o -MF CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o.d -o CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -224879,57 +224419,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' - 1618 | TContigIterator cit = begin(contigGaps, Standard()) + (_min(alignedRead.beginPos, alignedRead.endPos) + beginPosition(readGaps)); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' - 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:27:19: required from here - 27 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 28 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:773:58: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 773 | Iter > > result = lhs; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:775:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 775 | return result; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -224961,28 +224450,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h: In instantiation of 'void seqan::AnsonMyersRealignmentRound_::_subtractReadAlignment(unsigned int, unsigned int&, TProfileString&, seqan::ExtractProfileInfo_&, TAlignedReadElement, int, const seqan::WindowClippingInfo_&) [with TFragmentStore = seqan::FragmentStore<>; TProfileString = seqan::String >, seqan::Alloc<> >; TAlignedReadElement = seqan::AlignedReadStoreElement, void>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:1138:9: required from 'void seqan::AnsonMyersRealignmentRound_::run(unsigned int, unsigned int&) [with TFragmentStore = seqan::FragmentStore<>]' - 1138 | _subtractReadAlignment(windowBegin, windowEnd, profilePart, info, *it, it - begin(contigAlignedReads, - | ^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:685:18: required from 'void seqan::AnsonMyersRealigner_::run(unsigned int, unsigned int, unsigned int&) [with TFragmentStore = seqan::FragmentStore<>]' - 685 | round.run(windowBegin, windowEnd); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:1801:18: required from 'void seqan::reAlignment(FragmentStore&, unsigned int, unsigned int, unsigned int, bool, unsigned int, unsigned int, bool, bool) [with TSpec = void; TConfig = FragmentStoreConfig]' - 1801 | realigner.run(contigID, windowBegin, windowEnd); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:21:16: required from here - 21 | reAlignment(store, /*contigID=*/ 0, /*method=*/ 1, /*bandwidth=*/ 20, - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 22 | /*includeReference=*/ true); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:404:32: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 404 | for (TReadGapsIter itR2 = itR; itR2 != itREnd; ++itR2) - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -225017,56 +224484,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 250 | return value(me); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:32: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' - 1628 | else if (convert(*cit) == convert(*it)) - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' - 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:27:19: required from here - 27 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 28 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 205 | return TProxy(it); - | ^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:87, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' - 88 | Proxy(TIterator const _it) - | ~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 250 | return value(me); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:55: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' - 1628 | else if (convert(*cit) == convert(*it)) - | ^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' - 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:27:19: required from here - 27 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 28 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 205 | return TProxy(it); - | ^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' - 88 | Proxy(TIterator const _it) - | ~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -225099,31 +224516,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -225205,54 +224597,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 205 | return TProxy(it); - | ^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 250 | return value(me); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:32: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' - 1628 | else if (convert(*cit) == convert(*it)) - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' - 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:27:19: required from here - 27 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 28 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:89:15: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 89 | : data_iterator(_it) - | ^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 205 | return TProxy(it); - | ^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 250 | return value(me); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:55: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' - 1628 | else if (convert(*cit) == convert(*it)) - | ^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' - 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:27:19: required from here - 27 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 28 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:89:15: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 89 | : data_iterator(_it) - | ^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -225285,32 +224629,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': @@ -225394,6 +224712,724 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:1: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:36: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa.h:44, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:2: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa/graph_align_tcoffee_base.h:304:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 304 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_library.h:88:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 88 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_library.h:99:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 99 | public std::unary_function >, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/overlap_info_computation.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:65: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 666 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 714 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 782 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 851 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 885 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 933 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1814 | struct _qgramComp : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1833 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 46 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 85 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 98 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 112 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 127 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 110 | public std::binary_function < SkewDCStream, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 143 | public std::binary_function < SkewDCStream >, Pack> >, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 99 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 118 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 132 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 175 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 185 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | struct _skew7NCompMulti : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 97 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 141 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 59 | struct _mapInverse : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 164 | struct _mapInverseMulti : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' + 1618 | TContigIterator cit = begin(contigGaps, Standard()) + (_min(alignedRead.beginPos, alignedRead.endPos) + beginPosition(readGaps)); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' + 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:27:19: required from here + 27 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 28 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:773:58: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 773 | Iter > > result = lhs; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:775:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 775 | return result; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h: In instantiation of 'void seqan::AnsonMyersRealignmentRound_::_subtractReadAlignment(unsigned int, unsigned int&, TProfileString&, seqan::ExtractProfileInfo_&, TAlignedReadElement, int, const seqan::WindowClippingInfo_&) [with TFragmentStore = seqan::FragmentStore<>; TProfileString = seqan::String >, seqan::Alloc<> >; TAlignedReadElement = seqan::AlignedReadStoreElement, void>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:1138:9: required from 'void seqan::AnsonMyersRealignmentRound_::run(unsigned int, unsigned int&) [with TFragmentStore = seqan::FragmentStore<>]' + 1138 | _subtractReadAlignment(windowBegin, windowEnd, profilePart, info, *it, it - begin(contigAlignedReads, + | ^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:685:18: required from 'void seqan::AnsonMyersRealigner_::run(unsigned int, unsigned int, unsigned int&) [with TFragmentStore = seqan::FragmentStore<>]' + 685 | round.run(windowBegin, windowEnd); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:1801:18: required from 'void seqan::reAlignment(FragmentStore&, unsigned int, unsigned int, unsigned int, bool, unsigned int, unsigned int, bool, bool) [with TSpec = void; TConfig = FragmentStoreConfig]' + 1801 | realigner.run(contigID, windowBegin, windowEnd); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:21:16: required from here + 21 | reAlignment(store, /*contigID=*/ 0, /*method=*/ 1, /*bandwidth=*/ 20, + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 22 | /*includeReference=*/ true); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:404:32: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 404 | for (TReadGapsIter itR2 = itR; itR2 != itREnd; ++itR2) + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 250 | return value(me); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:32: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' + 1628 | else if (convert(*cit) == convert(*it)) + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' + 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:27:19: required from here + 27 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 28 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 205 | return TProxy(it); + | ^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:87, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' + 88 | Proxy(TIterator const _it) + | ~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 250 | return value(me); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:55: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' + 1628 | else if (convert(*cit) == convert(*it)) + | ^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' + 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:27:19: required from here + 27 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 28 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 205 | return TProxy(it); + | ^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' + 88 | Proxy(TIterator const _it) + | ~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 205 | return TProxy(it); + | ^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 250 | return value(me); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:32: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' + 1628 | else if (convert(*cit) == convert(*it)) + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' + 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:27:19: required from here + 27 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 28 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:89:15: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 89 | : data_iterator(_it) + | ^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 205 | return TProxy(it); + | ^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 250 | return value(me); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:55: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' + 1628 | else if (convert(*cit) == convert(*it)) + | ^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' + 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:27:19: required from here + 27 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 28 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:89:15: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 89 | : data_iterator(_it) + | ^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = unsigned int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = unsigned int; TTag = Standard_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' 679 | return begin(me, Tag()) + pos; @@ -226042,6 +226078,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:381:19: required from 'void seqan::_computeTrack(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSeqHValue&, const TSeqVValue&, const TSeqVIterator&, const TSeqVIterator&, const TScoringScheme&, TDPCell&, TDPCell&, const TColumnDescriptor&, const TDPProfile&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSeqHValue = ConsensusScoreSequenceEntry >, Alloc<> > >; TSeqVValue = ConsensusScoreSequenceEntry, Alloc<> >, InfixSegment> >; TSeqVIterator = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; TScoringScheme = Score >, Score > > >; TDPCell = DPCell_ >; TColumnDescriptor = MetaColumnDescriptor, Tag >; TDPProfile = DPProfile_ >, Tag, TracebackOn, Tag > >, Tag >]' 381 | TSeqVIterator iter = seqBegin; @@ -226163,10 +226203,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -226192,27 +226228,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -226470,6 +226485,27 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ [ 74%] Linking CXX executable ../bin/demo_tutorial_realignment_step1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_realignment_step1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_realignment_step1.dir/link.d CMakeFiles/demo_tutorial_realignment_step1.dir/tutorial/realignment/step1.cpp.o -o ../bin/demo_tutorial_realignment_step1 -lrt -lz -lbz2 @@ -226483,6 +226519,209 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 74%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/tutorial/sam_and_bam_io/base.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/tutorial/sam_and_bam_io/base.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/tutorial/sam_and_bam_io/base.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/tutorial/sam_and_bam_io/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/base.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/base.cpp:2: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/base.cpp:1: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -226740,209 +226979,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/base.cpp:2: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/base.cpp:1: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ [ 74%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_base cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/tutorial/sam_and_bam_io/base.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_base -lrt -lz -lbz2 @@ -227159,114 +227195,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -[ 74%] Linking CXX executable ../bin/demo_tutorial_realignment_step2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_realignment_step2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_realignment_step2.dir/link.d CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o -o ../bin/demo_tutorial_realignment_step2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Built target demo_tutorial_realignment_step2 -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example2.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example2.cpp:1: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:46: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -227288,114 +227216,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ +[ 74%] Linking CXX executable ../bin/demo_tutorial_realignment_step2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_realignment_step2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_realignment_step2.dir/link.d CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o -o ../bin/demo_tutorial_realignment_step2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 74%] Built target demo_tutorial_realignment_step2 +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 74%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example2.cpp In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -227651,47 +227484,24 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ -[ 74%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_example1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/tutorial/sam_and_bam_io/example1.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_example1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Built target demo_tutorial_sam_and_bam_io_example1 -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/tutorial/sam_and_bam_io/example7.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/tutorial/sam_and_bam_io/example7.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/tutorial/sam_and_bam_io/example7.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/tutorial/sam_and_bam_io/example7.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example7.cpp -[ 74%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_example2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_example2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Built target demo_tutorial_sam_and_bam_io_example2 -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 75%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example7.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example2.cpp:1: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/bits/stl_tree.h:67, - from /usr/include/c++/15/map:64, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example7.cpp:1: +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:46: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -227769,24 +227579,138 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +[ 74%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_example1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/tutorial/sam_and_bam_io/example1.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_example1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 74%] Built target demo_tutorial_sam_and_bam_io_example1 +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 74%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/tutorial/sam_and_bam_io/example7.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/tutorial/sam_and_bam_io/example7.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/tutorial/sam_and_bam_io/example7.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/tutorial/sam_and_bam_io/example7.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example7.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution1.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example7.cpp:2: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:46: +In file included from /usr/include/c++/15/bits/stl_tree.h:67, + from /usr/include/c++/15/map:64, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example7.cpp:1: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -227971,6 +227895,125 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ +[ 74%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_example2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_example2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 74%] Built target demo_tutorial_sam_and_bam_io_example2 +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 75%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution1.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution1.cpp:1: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:46: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -228079,34 +228122,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -228379,6 +228394,40 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +[ 75%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_example7 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/tutorial/sam_and_bam_io/example7.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_example7 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 75%] Built target demo_tutorial_sam_and_bam_io_example7 +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 75%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/tutorial/sam_and_bam_io/solution2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/tutorial/sam_and_bam_io/solution2.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/tutorial/sam_and_bam_io/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/tutorial/sam_and_bam_io/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution2.cpp In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -228634,32 +228683,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -[ 75%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_example7 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/tutorial/sam_and_bam_io/example7.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_example7 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 75%] Built target demo_tutorial_sam_and_bam_io_example7 -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 75%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/tutorial/sam_and_bam_io/solution2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/tutorial/sam_and_bam_io/solution2.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/tutorial/sam_and_bam_io/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/tutorial/sam_and_bam_io/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution2.cpp -[ 75%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_solution1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_solution1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 75%] Built target demo_tutorial_sam_and_bam_io_solution1 -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 75%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution3.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, @@ -228755,101 +228778,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution3.cpp:1: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:46: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -228958,6 +228886,135 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +[ 75%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_solution1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_solution1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 75%] Built target demo_tutorial_sam_and_bam_io_solution1 +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 75%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution3.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution3.cpp:1: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:46: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -229066,48 +229123,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -229363,261 +229378,27 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] 255 | throw BadLexicalCast(target, source); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here 72 | BadLexicalCast(TTarget const & target, TSource const & source) : | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] 255 | throw BadLexicalCast(target, source); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here 72 | BadLexicalCast(TTarget const & target, TSource const & source) : | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ [ 75%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_solution2 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/tutorial/sam_and_bam_io/solution2.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_solution2 -lrt -lz -lbz2 @@ -229631,19 +229412,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 75%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/tutorial/seed_and_extend/example1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/tutorial/seed_and_extend/example1.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/tutorial/seed_and_extend/example1.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/tutorial/seed_and_extend/example1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example1.cpp -[ 75%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_solution3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_solution3 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 75%] Built target demo_tutorial_sam_and_bam_io_solution3 -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 75%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -229792,94 +229560,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example2.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/bits/stl_tree.h:67, - from /usr/include/c++/15/map:64, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example2.cpp:2: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -230123,6 +229803,233 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -230144,6 +230051,148 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ +[ 75%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/tutorial/seed_and_extend/example1.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 75%] Built target demo_tutorial_seed_and_extend_example1 +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 75%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example2.cpp +[ 75%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_solution3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_solution3 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 75%] Built target demo_tutorial_sam_and_bam_io_solution3 +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 75%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example3.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example2.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/bits/stl_tree.h:67, + from /usr/include/c++/15/map:64, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example2.cpp:2: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, @@ -230468,32 +230517,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 75%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/tutorial/seed_and_extend/example1.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 75%] Built target demo_tutorial_seed_and_extend_example1 -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 75%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example3.cpp -[ 75%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 75%] Built target demo_tutorial_seed_and_extend_example2 -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 76%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example3.cpp:2: @@ -230592,87 +230615,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/bits/stl_tree.h:67, - from /usr/include/c++/15/map:64, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.cpp:2: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -230688,35 +230630,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.cpp:4: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -230730,44 +230643,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, @@ -231062,6 +230937,167 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 75%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 75%] Built target demo_tutorial_seed_and_extend_example2 +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 76%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/bits/stl_tree.h:67, + from /usr/include/c++/15/map:64, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.cpp:2: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.cpp:4: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -231339,6 +231375,8 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 76%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example5.cpp +[ 76%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -231431,6 +231469,17 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example3 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 76%] Built target demo_tutorial_seed_and_extend_example3 +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 76%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example6.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, @@ -231755,32 +231804,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 76%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example3 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 76%] Built target demo_tutorial_seed_and_extend_example3 -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 76%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example6.cpp -[ 76%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example5 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example5 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 76%] Built target demo_tutorial_seed_and_extend_example5 -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 76%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -231929,6 +231952,8 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 76%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example5 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -231945,6 +231970,9 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example5 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 76%] Built target demo_tutorial_seed_and_extend_example5 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -232020,6 +232048,9 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -232158,6 +232189,48 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 76%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +[ 76%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example6 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:3: @@ -232189,13 +232262,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 228 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ @@ -232238,13 +232304,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -232263,13 +232322,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -232285,20 +232337,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -232312,6 +232350,17 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example6 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 76%] Built target demo_tutorial_seed_and_extend_example6 +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 76%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/tutorial/seed_and_extend/solution1.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/tutorial/seed_and_extend/solution1.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/tutorial/seed_and_extend/solution1.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/tutorial/seed_and_extend/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, @@ -232937,8 +232986,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -[ 76%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example6 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; typename RemoveReference::Type = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' 392 | return _beginDefault(me, tag_); @@ -233043,17 +233090,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example6 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 76%] Built target demo_tutorial_seed_and_extend_example6 -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 76%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/tutorial/seed_and_extend/solution1.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/tutorial/seed_and_extend/solution1.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/tutorial/seed_and_extend/solution1.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/tutorial/seed_and_extend/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution1.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:381:19: required from 'void seqan::_computeTrack(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSeqHValue&, const TSeqVValue&, const TSeqVIterator&, const TSeqVIterator&, const TScoringScheme&, TDPCell&, TDPCell&, const TColumnDescriptor&, const TDPProfile&) [with TDPScout = DPScout_ >, Tag >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSeqHValue = SimpleType; TSeqVValue = SimpleType; TSeqVIterator = Iter, Alloc<> >, SuffixSegment>, AdaptorIterator*, Tag > >; TScoringScheme = Score >; TDPCell = DPCell_ >; TColumnDescriptor = MetaColumnDescriptor, Tag >; TDPProfile = DPProfile_, Tag >, Tag, TracebackOn, Tag > >, Tag >]' 381 | TSeqVIterator iter = seqBegin; @@ -233159,58 +233195,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_suffix.h:129:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' 129 | operator = (Segment const & source) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 117 | : data_container(_toPointer(container_)), - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:647:12: required from 'seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = const SimpleType*; TSpec = Tag]' - 647 | return Iter >(container(left), hostIterator(left) - right); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:526:58: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, Tag >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = BandedChainAlignment_, Tag >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' - 526 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; - | ~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1418 | dpProfile, TNavigationSpec{}); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1264:29: required from 'typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TGapScheme = Tag; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1264 | return _computeAlignment(dpContext, traceSegments, scoutState, seqH, seqV, scoreScheme, band, dpProfile); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:873:34: required from 'typename seqan::Value::Type seqan::_initializeBandedChain(TTraceSet&, TScoutState&, const TSeed&, unsigned int, const TSeqH&, const TSeqV&, const TScoreScheme&, const TScoreScheme&, const DPProfile_, TGapCosts, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSeed = Seed >; TSeqH = String, Alloc<> >; TSeqV = String, Alloc<> >; TScoreScheme = Score >; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGaps = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag; typename Value::Type = int]' - 873 | score = _computeAlignment(globalTraceSet, scoutState, infixH, infixV, scoreSchemeGap, DPBandConfig(), - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 874 | DPProfile_, TGaps, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 875 | TracebackOn, TExecPolicy>()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1319:47: required from 'TScoreValue seqan::_computeAlignment(TTraceSet&, const TSeedSet&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, unsigned int, const DPProfile_, TGapSpec, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TSeedSet = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGapSpec = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag]' - 1319 | TScoreValue score = _initializeBandedChain(globalTraceSet, scoutState, value(it), bandExtension, seqH, seqV, - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1320 | scoreSchemeAnchor, scoreSchemeGap, profile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_profile.h:258:33: required from 'TScoreValue seqan::_setupAndRunBandedChainAlignment(StringSet, TStringSetSpec>&, const TSeeds&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, const AlignConfig&, unsigned int, const TGapsPlacement&) [with TTraceSegment = TraceSegment_; TStringSetSpec = Owner<>; TSeeds = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag; TGapsPlacement = Tag]' - 258 | return _computeAlignment(globalTraceSet, seedSet, seqH, seqV, scoringSchemeAnchor, scoringSchemeGap, bandExtension, - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 259 | TDPProfile()); - | ~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:201:41: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag]' - 201 | _setupAndRunBandedChainAlignment(traceSet, seedSet, source(row(align, 0)), source(row(align, 1)), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 202 | scoreSchemeAnchor, scoreSchemeGap, alignConfig, bandExtension, GapsLeft()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:245:32: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpec = Tag]' - 245 | return bandedChainAlignment(align, seedSet, scoreScheme, scoreScheme, AlignConfig<>(), bandExtension); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:30:38: required from here - 30 | int result = bandedChainAlignment(alignment, seedChain, scoringScheme, 2); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -233299,6 +233283,58 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 117 | : data_container(_toPointer(container_)), + | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:647:12: required from 'seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = const SimpleType*; TSpec = Tag]' + 647 | return Iter >(container(left), hostIterator(left) - right); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:526:58: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, Tag >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = BandedChainAlignment_, Tag >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' + 526 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; + | ~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1418 | dpProfile, TNavigationSpec{}); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1264:29: required from 'typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TGapScheme = Tag; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1264 | return _computeAlignment(dpContext, traceSegments, scoutState, seqH, seqV, scoreScheme, band, dpProfile); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:873:34: required from 'typename seqan::Value::Type seqan::_initializeBandedChain(TTraceSet&, TScoutState&, const TSeed&, unsigned int, const TSeqH&, const TSeqV&, const TScoreScheme&, const TScoreScheme&, const DPProfile_, TGapCosts, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSeed = Seed >; TSeqH = String, Alloc<> >; TSeqV = String, Alloc<> >; TScoreScheme = Score >; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGaps = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag; typename Value::Type = int]' + 873 | score = _computeAlignment(globalTraceSet, scoutState, infixH, infixV, scoreSchemeGap, DPBandConfig(), + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 874 | DPProfile_, TGaps, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 875 | TracebackOn, TExecPolicy>()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1319:47: required from 'TScoreValue seqan::_computeAlignment(TTraceSet&, const TSeedSet&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, unsigned int, const DPProfile_, TGapSpec, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TSeedSet = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGapSpec = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag]' + 1319 | TScoreValue score = _initializeBandedChain(globalTraceSet, scoutState, value(it), bandExtension, seqH, seqV, + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1320 | scoreSchemeAnchor, scoreSchemeGap, profile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_profile.h:258:33: required from 'TScoreValue seqan::_setupAndRunBandedChainAlignment(StringSet, TStringSetSpec>&, const TSeeds&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, const AlignConfig&, unsigned int, const TGapsPlacement&) [with TTraceSegment = TraceSegment_; TStringSetSpec = Owner<>; TSeeds = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag; TGapsPlacement = Tag]' + 258 | return _computeAlignment(globalTraceSet, seedSet, seqH, seqV, scoringSchemeAnchor, scoringSchemeGap, bandExtension, + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 259 | TDPProfile()); + | ~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:201:41: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag]' + 201 | _setupAndRunBandedChainAlignment(traceSet, seedSet, source(row(align, 0)), source(row(align, 1)), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 202 | scoreSchemeAnchor, scoreSchemeGap, alignConfig, bandExtension, GapsLeft()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:245:32: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpec = Tag]' + 245 | return bandedChainAlignment(align, seedSet, scoreScheme, scoreScheme, AlignConfig<>(), bandExtension); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:30:38: required from here + 30 | int result = bandedChainAlignment(alignment, seedChain, scoringScheme, 2); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, @@ -235101,8 +235137,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 77%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example7 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 646 | struct FunctorGlobalize : public std::unary_function | ^~~~~~~~~~~~~~ @@ -235316,17 +235350,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example7 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 77%] Built target demo_tutorial_seed_and_extend_example7 -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 77%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution6.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -235348,6 +235371,19 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 77%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example7 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example7 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 77%] Built target demo_tutorial_seed_and_extend_example7 +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 77%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution6.cpp [ 77%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_solution5 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/tutorial/seed_and_extend/solution5.cpp.o -o ../bin/demo_tutorial_seed_and_extend_solution5 -lrt -lz -lbz2 @@ -235362,6 +235398,154 @@ [ 77%] Building CXX object demos/CMakeFiles/demo_tutorial_seeds_example1.dir/tutorial/seeds/example1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seeds_example1.dir/tutorial/seeds/example1.cpp.o -MF CMakeFiles/demo_tutorial_seeds_example1.dir/tutorial/seeds/example1.cpp.o.d -o CMakeFiles/demo_tutorial_seeds_example1.dir/tutorial/seeds/example1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/bits/stl_tree.h:67, + from /usr/include/c++/15/map:64, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp:2: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp:4: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution6.cpp:2: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -235615,6 +235799,15 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -235628,6 +235821,13 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function @@ -235767,161 +235967,261 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/bits/stl_tree.h:67, - from /usr/include/c++/15/map:64, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp:2: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 666 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 714 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 782 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 851 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 885 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 933 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1814 | struct _qgramComp : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1833 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 46 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 85 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 98 | public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 112 | public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 127 | public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 110 | public std::binary_function < SkewDCStream, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 143 | public std::binary_function < SkewDCStream >, Pack> >, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 99 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 118 | public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 132 | public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 175 | public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 185 | public std::binary_function + | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp:4: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | struct _skew7NCompMulti : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 97 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 141 | public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 59 | struct _mapInverse : public std::unary_function { + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: @@ -236429,249 +236729,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_suffix.h:129:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' 129 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 666 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 714 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 782 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 851 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 885 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 933 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1814 | struct _qgramComp : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1833 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 46 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 85 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 98 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 112 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 127 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 110 | public std::binary_function < SkewDCStream, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 143 | public std::binary_function < SkewDCStream >, Pack> >, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 99 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 118 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 132 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 175 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 185 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | struct _skew7NCompMulti : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 97 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 141 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 59 | struct _mapInverse : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 164 | struct _mapInverseMulti : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 117 | : data_container(_toPointer(container_)), @@ -236721,27 +236778,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ [ 77%] Linking CXX executable ../bin/demo_tutorial_seeds_example1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seeds_example1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seeds_example1.dir/link.d CMakeFiles/demo_tutorial_seeds_example1.dir/tutorial/seeds/example1.cpp.o -o ../bin/demo_tutorial_seeds_example1 -lrt -lz -lbz2 @@ -238752,6 +238788,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ [ 78%] Linking CXX executable ../bin/demo_tutorial_sequence_io_solution1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequence_io_solution1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequence_io_solution1.dir/link.d CMakeFiles/demo_tutorial_sequence_io_solution1.dir/tutorial/sequence_io/solution1.cpp.o -o ../bin/demo_tutorial_sequence_io_solution1 -lrt -lz -lbz2 @@ -238765,10 +238805,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/tutorial/sequence_io/solution3.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/tutorial/sequence_io/solution3.cpp.o -MF CMakeFiles/demo_tutorial_sequence_io_solution3.dir/tutorial/sequence_io/solution3.cpp.o.d -o CMakeFiles/demo_tutorial_sequence_io_solution3.dir/tutorial/sequence_io/solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution3.cpp -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ +[ 78%] Linking CXX executable ../bin/demo_tutorial_sequence_io_solution2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequence_io_solution2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequence_io_solution2.dir/link.d CMakeFiles/demo_tutorial_sequence_io_solution2.dir/tutorial/sequence_io/solution2.cpp.o -o ../bin/demo_tutorial_sequence_io_solution2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 78%] Built target demo_tutorial_sequence_io_solution2 +make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/tutorial/sequence_io/solution4.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/tutorial/sequence_io/solution4.cpp.o -MF CMakeFiles/demo_tutorial_sequence_io_solution4.dir/tutorial/sequence_io/solution4.cpp.o.d -o CMakeFiles/demo_tutorial_sequence_io_solution4.dir/tutorial/sequence_io/solution4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution4.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -238865,8 +238914,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 78%] Linking CXX executable ../bin/demo_tutorial_sequence_io_solution2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequence_io_solution2.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 221 | struct QualityExtractor : public std::unary_function @@ -238874,17 +238921,109 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequence_io_solution2.dir/link.d CMakeFiles/demo_tutorial_sequence_io_solution2.dir/tutorial/sequence_io/solution2.cpp.o -o ../bin/demo_tutorial_sequence_io_solution2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 78%] Built target demo_tutorial_sequence_io_solution2 -make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/tutorial/sequence_io/solution4.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/tutorial/sequence_io/solution4.cpp.o -MF CMakeFiles/demo_tutorial_sequence_io_solution4.dir/tutorial/sequence_io/solution4.cpp.o.d -o CMakeFiles/demo_tutorial_sequence_io_solution4.dir/tutorial/sequence_io/solution4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution4.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution4.cpp:1: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:44: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -238963,6 +239102,25 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -238989,6 +239147,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -239133,164 +239304,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution4.cpp:1: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:44: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution3.cpp:10:14: required from here - 10 | if (!open(seqFileIn, toCString(seqFileName))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -239330,6 +239343,29 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution3.cpp:10:14: required from here + 10 | if (!open(seqFileIn, toCString(seqFileName))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 2155 | public std::binary_function< @@ -239534,6 +239570,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ [ 78%] Linking CXX executable ../bin/demo_tutorial_sequence_io_solution3 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequence_io_solution3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequence_io_solution3.dir/link.d CMakeFiles/demo_tutorial_sequence_io_solution3.dir/tutorial/sequence_io/solution3.cpp.o -o ../bin/demo_tutorial_sequence_io_solution3 -lrt -lz -lbz2 @@ -239547,10 +239587,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/tutorial/sequences/assignment_1_solution.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/tutorial/sequences/assignment_1_solution.cpp.o -MF CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/tutorial/sequences/assignment_1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/tutorial/sequences/assignment_1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_1_solution.cpp -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -239862,19 +239898,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 79%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o -MF CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_3_solution.cpp -[ 79%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_2_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/tutorial/sequences/assignment_2_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_2_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 79%] Built target demo_tutorial_sequences_assignment_2_solution -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 79%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o -MF CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_4_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -239967,8 +239990,21 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 79%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_2_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/tutorial/sequences/assignment_2_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_2_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 79%] Built target demo_tutorial_sequences_assignment_2_solution +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/DependInfo.cmake "--color=" [ 79%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_3_solution cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/link.txt --verbose=1 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 79%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o -MF CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_4_solution.cpp /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_3_solution -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 79%] Built target demo_tutorial_sequences_assignment_3_solution @@ -240164,11 +240200,11 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 79%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_4_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_4_solution -lrt -lz -lbz2 +[ 79%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_5_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/tutorial/sequences/assignment_5_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_5_solution -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 79%] Built target demo_tutorial_sequences_assignment_4_solution +[ 79%] Built target demo_tutorial_sequences_assignment_5_solution make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/DependInfo.cmake "--color=" @@ -240177,11 +240213,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 79%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o -MF CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_6_solution.cpp -[ 79%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_5_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/tutorial/sequences/assignment_5_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_5_solution -lrt -lz -lbz2 +[ 79%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_4_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_4_solution -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 79%] Built target demo_tutorial_sequences_assignment_5_solution +[ 79%] Built target demo_tutorial_sequences_assignment_4_solution make -f demos/CMakeFiles/demo_tutorial_sequences_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_base.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_base.dir/DependInfo.cmake "--color=" @@ -240369,11 +240405,11 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 80%] Linking CXX executable ../bin/demo_tutorial_sequences_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_base.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_base.dir/link.d CMakeFiles/demo_tutorial_sequences_base.dir/tutorial/sequences/base.cpp.o -o ../bin/demo_tutorial_sequences_base -lrt -lz -lbz2 +[ 80%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_6_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_6_solution -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 80%] Built target demo_tutorial_sequences_base +[ 80%] Built target demo_tutorial_sequences_assignment_6_solution make -f demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/DependInfo.cmake "--color=" @@ -240382,11 +240418,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 80%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/tutorial/sequences/example_comparisons.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/tutorial/sequences/example_comparisons.cpp.o -MF CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/tutorial/sequences/example_comparisons.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/tutorial/sequences/example_comparisons.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_comparisons.cpp -[ 80%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_6_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_6_solution -lrt -lz -lbz2 +[ 80%] Linking CXX executable ../bin/demo_tutorial_sequences_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_base.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_base.dir/link.d CMakeFiles/demo_tutorial_sequences_base.dir/tutorial/sequences/base.cpp.o -o ../bin/demo_tutorial_sequences_base -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 80%] Built target demo_tutorial_sequences_assignment_6_solution +[ 80%] Built target demo_tutorial_sequences_base make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/DependInfo.cmake "--color=" @@ -240536,52 +240572,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -240678,6 +240668,52 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -240832,17 +240868,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 80%] Linking CXX executable ../bin/demo_tutorial_sequences_example_conversions_copy -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/link.d CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/tutorial/sequences/example_conversions_copy.cpp.o -o ../bin/demo_tutorial_sequences_example_conversions_copy -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 80%] Built target demo_tutorial_sequences_example_conversions_copy -make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -240868,8 +240893,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 80%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/tutorial/sequences/example_functionality1.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/tutorial/sequences/example_functionality1.cpp.o -MF CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/tutorial/sequences/example_functionality1.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/tutorial/sequences/example_functionality1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_functionality1.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -240921,6 +240944,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +[ 80%] Linking CXX executable ../bin/demo_tutorial_sequences_example_conversions_copy +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/link.d CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/tutorial/sequences/example_conversions_copy.cpp.o -o ../bin/demo_tutorial_sequences_example_conversions_copy -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 80%] Built target demo_tutorial_sequences_example_conversions_copy +make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 80%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/tutorial/sequences/example_functionality1.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/tutorial/sequences/example_functionality1.cpp.o -MF CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/tutorial/sequences/example_functionality1.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/tutorial/sequences/example_functionality1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_functionality1.cpp [ 80%] Linking CXX executable ../bin/demo_tutorial_sequences_example_conversions_move cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/link.d CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/tutorial/sequences/example_conversions_move.cpp.o -o ../bin/demo_tutorial_sequences_example_conversions_move -lrt -lz -lbz2 @@ -241030,6 +241066,38 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -241105,59 +241173,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -241197,6 +241212,13 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 2155 | public std::binary_function< @@ -241204,6 +241226,20 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -241229,25 +241265,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -241273,19 +241290,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -241312,6 +241316,38 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -241554,9 +241590,13 @@ | ^~~~~~~~~~~~~~ [ 81%] Linking CXX executable ../bin/demo_tutorial_sequences_example_segments cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_example_segments.dir/link.txt --verbose=1 +[ 81%] Linking CXX executable ../bin/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_example_segments.dir/link.d CMakeFiles/demo_tutorial_sequences_example_segments.dir/tutorial/sequences/example_segments.cpp.o -o ../bin/demo_tutorial_sequences_example_segments -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 81%] Built target demo_tutorial_sequences_example_segments +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/tutorial/sequences_in_depth/assignment_exact_generous_solution.cpp.o -o ../bin/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 81%] Built target demo_tutorial_sequences_in_depth_assignment_exact_generous_solution make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/DependInfo.cmake "--color=" @@ -241565,11 +241605,7 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 81%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/tutorial/sequences_in_depth/base.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/tutorial/sequences_in_depth/base.cpp.o -MF CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/tutorial/sequences_in_depth/base.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/tutorial/sequences_in_depth/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/base.cpp -[ 81%] Linking CXX executable ../bin/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/tutorial/sequences_in_depth/assignment_exact_generous_solution.cpp.o -o ../bin/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 81%] Built target demo_tutorial_sequences_in_depth_assignment_exact_generous_solution +[ 81%] Built target demo_tutorial_sequences_example_segments make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/DependInfo.cmake "--color=" @@ -241578,19 +241614,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 81%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/tutorial/sequences_in_depth/example_overflow.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/tutorial/sequences_in_depth/example_overflow.cpp.o -MF CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/tutorial/sequences_in_depth/example_overflow.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/tutorial/sequences_in_depth/example_overflow.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/example_overflow.cpp -[ 81%] Linking CXX executable ../bin/demo_tutorial_sequences_in_depth_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/link.d CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/tutorial/sequences_in_depth/base.cpp.o -o ../bin/demo_tutorial_sequences_in_depth_base -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 81%] Built target demo_tutorial_sequences_in_depth_base -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 81%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/tutorial/simple_rna_seq/base.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/tutorial/simple_rna_seq/base.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/tutorial/simple_rna_seq/base.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/tutorial/simple_rna_seq/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -241683,6 +241706,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 81%] Linking CXX executable ../bin/demo_tutorial_sequences_in_depth_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/link.d CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/tutorial/sequences_in_depth/base.cpp.o -o ../bin/demo_tutorial_sequences_in_depth_base -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 81%] Built target demo_tutorial_sequences_in_depth_base +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 81%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/tutorial/simple_rna_seq/base.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/tutorial/simple_rna_seq/base.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/tutorial/simple_rna_seq/base.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/tutorial/simple_rna_seq/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/base.cpp [ 81%] Linking CXX executable ../bin/demo_tutorial_sequences_in_depth_example_overflow cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/link.d CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/tutorial/sequences_in_depth/example_overflow.cpp.o -o ../bin/demo_tutorial_sequences_in_depth_example_overflow -lrt -lz -lbz2 @@ -242414,6 +242450,91 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment3.cpp:2: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment3.cpp:1: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -242440,6 +242561,17 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGff_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -242538,99 +242670,39 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment3.cpp:2: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment3.cpp:1: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -242768,42 +242840,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -243112,6 +243148,12 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -243133,12 +243175,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -243887,6 +243923,84 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment5.cpp:2: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment5.cpp:1: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGff_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -243909,6 +244023,24 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -243985,102 +244117,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment5.cpp:2: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment5.cpp:1: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -244588,6 +244624,12 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -244609,12 +244651,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -245133,6 +245169,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/tutorial/simple_rna_seq/genequant_solution1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/tutorial/simple_rna_seq/genequant_solution1.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/tutorial/simple_rna_seq/genequant_solution1.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/tutorial/simple_rna_seq/genequant_solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution1.cpp +[ 82%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_assignment5 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/tutorial/simple_rna_seq/genequant_assignment5.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_assignment5 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 82%] Built target demo_tutorial_simple_rna_seq_genequant_assignment5 +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -245265,6 +245314,84 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution2.cpp:2: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution2.cpp:1: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -245302,6 +245429,13 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 2155 | public std::binary_function< @@ -245309,6 +245443,53 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -245335,6 +245516,43 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGff_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -245357,6 +245575,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -245433,6 +245658,54 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGff_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution2.cpp:33:14: required from here + 33 | if (!open(annotationFile, toCString(annotationFileName))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' @@ -245483,8 +245756,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ -[ 82%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_assignment5 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:36: @@ -245569,241 +245840,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/tutorial/simple_rna_seq/genequant_assignment5.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_assignment5 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 82%] Built target demo_tutorial_simple_rna_seq_genequant_assignment5 -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution2.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution2.cpp:2: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution2.cpp:1: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGff_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution2.cpp:33:14: required from here - 33 | if (!open(annotationFile, toCString(annotationFileName))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -246020,6 +246056,12 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -246041,12 +246083,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -246295,21 +246331,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, - inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -246537,6 +246558,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, + inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50, inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, @@ -246567,11 +246603,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 82%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/link.txt --verbose=1 [ 82%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/tutorial/simple_rna_seq/genequant_solution1.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution1 -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution2 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 82%] Built target demo_tutorial_simple_rna_seq_genequant_solution1 +[ 82%] Built target demo_tutorial_simple_rna_seq_genequant_solution2 make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/DependInfo.cmake "--color=" @@ -246580,6 +246618,17 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/tutorial/simple_rna_seq/genequant_solution1.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 82%] Built target demo_tutorial_simple_rna_seq_genequant_solution1 +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution4.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -246665,368 +246714,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGff_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp:34:14: required from here - 34 | if (!open(annotationFile, toCString(annotationFileName))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGtf_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp:34:14: required from here - 34 | if (!open(annotationFile, toCString(annotationFileName))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' - 679 | return begin(me, Tag()) + pos; - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:661:16: required from 'typename seqan::Iterator::Type>::Type seqan::iter(T&, TPos) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >; typename DefaultGetIteratorSpec::Type = const Tag]' - 661 | return iter(me, pos, typename DefaultGetIteratorSpec::Type()); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:466:20: required from 'void seqan::insertGaps(Gaps >&, TPosition, TCount) [with TSequence = Segment, Alloc<> >, InfixSegment>; TGapAnchors = String, Alloc<> >; TPosition = long int; TCount = long int]' - 466 | TIter it = iter(gaps, clippedViewPos); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2236:27: required from 'void seqan::_alignedReadsInsertGaps(TAlignedReadIter, TAlignedReadIter, TPos, TSize, TReadSeqStore&) [with TAlignedReadIter = AlignedReadStoreElement, void>*; TPos = long int; TSize = long int; TReadSeqStore = StringSet, Alloc<> >, Owner > >]' - 2236 | insertGaps(gaps, insPos - rBegin, blkLen); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2321:40: required from 'void seqan::_twoWayMergeAlignments(TContigGapsGlobal&, TContigGapsPW&, TReadGaps&, TAlignedReadIter, TAlignedReadIter, TAlignedReadIter, TAlignedReadIter, TReadSeqStore&) [with TContigGapsGlobal = Gaps, AnchorGaps, Alloc<> > > >; TContigGapsPW = Gaps, AnchorGaps, Alloc<> >, InfixSegment> > >; TReadGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TAlignedReadIter = AlignedReadStoreElement, void>*; TReadSeqStore = StringSet, Alloc<> >, Owner > >]' - 2321 | _alignedReadsInsertGaps(overlappingAlignedReadsBegin1, overlappingAlignedReadsEnd1, insPos, blkLen, readSeqStore); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2437:31: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' - 2437 | _twoWayMergeAlignments( - | ~~~~~~~~~~~~~~~~~~~~~~^ - 2438 | contigGapsGlobal, contigGapsPW, readGaps, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2439 | firstOverlapOld, lastOverlapOld, firstOverlapNew, it, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2440 | store.readSeqStore); - | ~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' - 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 373 | readRecords(store, bamFile, FragStoreImportFlags()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp:29:16: required from here - 29 | readRecords(store, alignmentFile); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:773:58: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 773 | Iter > > result = lhs; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:775:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 775 | return result; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:36: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' - 305 | TConstructor::construct(it, std::forward(param_)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' - 548 | valueConstruct(ret, data); - | ~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]' - 650 | me.data_value = _holderAllocateObject(me, value_); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:887:15: required from 'void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]' - 887 | create(me, value_); - | ~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:135:20: required from 'seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 135 | assignValue(*this, value_); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:165:9: required from 'seqan::Gaps >::Gaps(const TGapAnchors&) [with TSource = seqan::Tag; TGapAnchors = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 165 | data_gaps(anchors), - | ^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2393:29: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' - 2393 | TContigGapsPW contigGapsPW(/*contigInfix, */gaps[it->id - offsetRecord]); - | ^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' - 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 373 | readRecords(store, bamFile, FragStoreImportFlags()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp:29:16: required from here - 29 | readRecords(store, alignmentFile); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' - 305 | TConstructor::construct(it, std::forward(param_)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' - 548 | valueConstruct(ret, data); - | ~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]' - 650 | me.data_value = _holderAllocateObject(me, value_); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:887:15: required from 'void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]' - 887 | create(me, value_); - | ~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:135:20: required from 'seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 135 | assignValue(*this, value_); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:175:9: required from 'seqan::Gaps >::Gaps(const TSourceNoConstNoRef&, TGapAnchors&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TGapAnchors = seqan::String, seqan::Alloc<> >; TSourceNoConstNoRef = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 175 | data_source(source), - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2394:29: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' - 2394 | TReadGaps readGaps(store.readSeqStore[it->readId], it->gaps); - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' - 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 373 | readRecords(store, bamFile, FragStoreImportFlags()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp:29:16: required from here - 29 | readRecords(store, alignmentFile); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -[ 82%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 82%] Built target demo_tutorial_simple_rna_seq_genequant_solution2 -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution4.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -247123,6 +246810,32 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -247151,6 +246864,19 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -247159,12 +246885,58 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -247264,6 +247036,54 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGff_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp:34:14: required from here + 34 | if (!open(annotationFile, toCString(annotationFileName))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGff_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -247311,6 +247131,56 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGtf_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp:34:14: required from here + 34 | if (!open(annotationFile, toCString(annotationFileName))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGtf_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -247362,6 +247232,82 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' + 679 | return begin(me, Tag()) + pos; + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:661:16: required from 'typename seqan::Iterator::Type>::Type seqan::iter(T&, TPos) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >; typename DefaultGetIteratorSpec::Type = const Tag]' + 661 | return iter(me, pos, typename DefaultGetIteratorSpec::Type()); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:466:20: required from 'void seqan::insertGaps(Gaps >&, TPosition, TCount) [with TSequence = Segment, Alloc<> >, InfixSegment>; TGapAnchors = String, Alloc<> >; TPosition = long int; TCount = long int]' + 466 | TIter it = iter(gaps, clippedViewPos); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2236:27: required from 'void seqan::_alignedReadsInsertGaps(TAlignedReadIter, TAlignedReadIter, TPos, TSize, TReadSeqStore&) [with TAlignedReadIter = AlignedReadStoreElement, void>*; TPos = long int; TSize = long int; TReadSeqStore = StringSet, Alloc<> >, Owner > >]' + 2236 | insertGaps(gaps, insPos - rBegin, blkLen); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2321:40: required from 'void seqan::_twoWayMergeAlignments(TContigGapsGlobal&, TContigGapsPW&, TReadGaps&, TAlignedReadIter, TAlignedReadIter, TAlignedReadIter, TAlignedReadIter, TReadSeqStore&) [with TContigGapsGlobal = Gaps, AnchorGaps, Alloc<> > > >; TContigGapsPW = Gaps, AnchorGaps, Alloc<> >, InfixSegment> > >; TReadGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TAlignedReadIter = AlignedReadStoreElement, void>*; TReadSeqStore = StringSet, Alloc<> >, Owner > >]' + 2321 | _alignedReadsInsertGaps(overlappingAlignedReadsBegin1, overlappingAlignedReadsEnd1, insPos, blkLen, readSeqStore); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2437:31: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' + 2437 | _twoWayMergeAlignments( + | ~~~~~~~~~~~~~~~~~~~~~~^ + 2438 | contigGapsGlobal, contigGapsPW, readGaps, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2439 | firstOverlapOld, lastOverlapOld, firstOverlapNew, it, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2440 | store.readSeqStore); + | ~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' + 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 373 | readRecords(store, bamFile, FragStoreImportFlags()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp:29:16: required from here + 29 | readRecords(store, alignmentFile); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:773:58: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 773 | Iter > > result = lhs; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:775:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 775 | return result; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' @@ -247446,6 +247392,90 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' 373 | readRecords(store, bamFile, FragStoreImportFlags()); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp:29:16: required from here + 29 | readRecords(store, alignmentFile); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' + 305 | TConstructor::construct(it, std::forward(param_)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' + 548 | valueConstruct(ret, data); + | ~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]' + 650 | me.data_value = _holderAllocateObject(me, value_); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:887:15: required from 'void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]' + 887 | create(me, value_); + | ~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:135:20: required from 'seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 135 | assignValue(*this, value_); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:175:9: required from 'seqan::Gaps >::Gaps(const TSourceNoConstNoRef&, TGapAnchors&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TGapAnchors = seqan::String, seqan::Alloc<> >; TSourceNoConstNoRef = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 175 | data_source(source), + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2394:29: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' + 2394 | TReadGaps readGaps(store.readSeqStore[it->readId], it->gaps); + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' + 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 373 | readRecords(store, bamFile, FragStoreImportFlags()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp:29:16: required from here + 29 | readRecords(store, alignmentFile); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:36: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' + 305 | TConstructor::construct(it, std::forward(param_)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' + 548 | valueConstruct(ret, data); + | ~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]' + 650 | me.data_value = _holderAllocateObject(me, value_); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:887:15: required from 'void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]' + 887 | create(me, value_); + | ~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:135:20: required from 'seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 135 | assignValue(*this, value_); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:165:9: required from 'seqan::Gaps >::Gaps(const TGapAnchors&) [with TSource = seqan::Tag; TGapAnchors = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 165 | data_gaps(anchors), + | ^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2393:29: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' + 2393 | TContigGapsPW contigGapsPW(/*contigInfix, */gaps[it->id - offsetRecord]); + | ^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' + 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 373 | readRecords(store, bamFile, FragStoreImportFlags()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution4.cpp:31:16: required from here 31 | readRecords(store, alignmentFile); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ @@ -247496,6 +247526,18 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -247517,12 +247559,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -247771,21 +247807,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, - inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -248013,19 +248034,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 84%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution3 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 84%] Built target demo_tutorial_simple_rna_seq_genequant_solution3 -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 84%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution5.cpp In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, @@ -248041,6 +248049,47 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, + inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +[ 84%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution3 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 84%] Built target demo_tutorial_simple_rna_seq_genequant_solution3 +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 84%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution5.cpp +[ 84%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution4 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution4 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 84%] Built target demo_tutorial_simple_rna_seq_genequant_solution4 +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 84%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -248165,6 +248214,93 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp:2: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -248173,6 +248309,13 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -248217,6 +248360,128 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:56: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::addInterval(TGraph&, TPropertyMap&, TInterval) [with TGraph = Graph > >; TPropertyMap = String > >, StorePointsOnly>, Alloc<> >; TInterval = IntervalAndCargo > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1363:16: required from 'void seqan::addInterval(IntervalTree&, TInterval) [with TValue = int; TCargo = String >; TInterval = IntervalAndCargo > >]' + 1363 | addInterval(itree.g, itree.pm, interval); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp:42:16: required from here + 42 | addInterval(tree, interval); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1286:18: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1286 | act_prop = property(pm, act_knot); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1299:27: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1299 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1329:31: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1329 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TValue) [with TSpec = Directed >; TPropertyMap = String > >, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1502:18: required from 'void seqan::findIntervals(String&, const IntervalTree&, TValue2) [with TValue = int; TCargo = String >; TValue2 = int]' + 1502 | findIntervals(result, it.g, it.pm, query); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp:58:18: required from here + 58 | findIntervals(results, tree, snpPos); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1441:18: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1441 | act_prop = property(pm, act_knot); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1453:23: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1453 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1475:27: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1475 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TVertexDescriptor&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String > >, StorePointsOnly>, Alloc<> >; TVertexDescriptor = unsigned int; TValue = int; TCargo = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1532:18: required from 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String > >, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = String >]' + 1532 | findIntervals(result, g, pm, act_knot, query_begin, query_end); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1513:18: required from 'void seqan::findIntervals(String&, const IntervalTree&, TValue2, TValue2) [with TValue = int; TCargo = String >; TValue2 = int]' + 1513 | findIntervals(result, tree.g, tree.pm, query_begin, query_end); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp:49:18: required from here + 49 | findIntervals(results, tree, delBegin, delEnd); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1562:18: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1562 | act_prop = property(pm, act_knot); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1575:23: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1575 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1598:27: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1598 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'bool seqan::removeInterval(Graph&, TPropertyMap&, TVertexDescriptor&, TValue, TValue, TCargo) [with TSpec = Directed >; TPropertyMap = String > >, StorePointsOnly>, Alloc<> >; TVertexDescriptor = unsigned int; TValue = int; TCargo = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1882:26: required from 'bool seqan::removeInterval(Graph&, TPropertyMap&, TValue, TValue, TCargo) [with TSpec = Directed >; TPropertyMap = String > >, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = String >]' + 1882 | return removeInterval(g, pm, act_knot, i_begin, i_end, i_id); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1893:26: required from 'bool seqan::removeInterval(IntervalTree&, TValue, TValue, TCargo) [with TValue = int; TCargo = String >]' + 1893 | return removeInterval(tree.g, tree.pm, i_begin, i_end, i_id); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp:66:30: required from here + 66 | bool res = removeInterval(tree, 50, 200, iCargo); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1779:18: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1779 | act_prop = property(pm, act_knot); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1786:23: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1786 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1802:27: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1802 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:61: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_annotation.h: In instantiation of 'seqan::Iter > seqan::nodeDown(const Iter >&) [with TFragmentStore = const FragmentStore<>; TSpec = void]': /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution5.cpp:146:30: required from here @@ -248387,19 +248652,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -[ 84%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution4 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution4 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 84%] Built target demo_tutorial_simple_rna_seq_genequant_solution4 -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 84%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' @@ -248534,12 +248786,23 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +[ 84%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_interval_tree +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_interval_tree -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 84%] Built target demo_tutorial_simple_rna_seq_interval_tree +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 84%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_1_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_1_solution.cpp:3: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -248550,7 +248813,7 @@ from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_1_solution.cpp:1: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -248628,134 +248891,14 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:56: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::addInterval(TGraph&, TPropertyMap&, TInterval) [with TGraph = Graph > >; TPropertyMap = String > >, StorePointsOnly>, Alloc<> >; TInterval = IntervalAndCargo > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1363:16: required from 'void seqan::addInterval(IntervalTree&, TInterval) [with TValue = int; TCargo = String >; TInterval = IntervalAndCargo > >]' - 1363 | addInterval(itree.g, itree.pm, interval); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp:42:16: required from here - 42 | addInterval(tree, interval); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1286:18: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1286 | act_prop = property(pm, act_knot); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1299:27: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1299 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1329:31: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1329 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TValue) [with TSpec = Directed >; TPropertyMap = String > >, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1502:18: required from 'void seqan::findIntervals(String&, const IntervalTree&, TValue2) [with TValue = int; TCargo = String >; TValue2 = int]' - 1502 | findIntervals(result, it.g, it.pm, query); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp:58:18: required from here - 58 | findIntervals(results, tree, snpPos); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1441:18: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1441 | act_prop = property(pm, act_knot); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1453:23: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1453 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1475:27: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1475 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TVertexDescriptor&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String > >, StorePointsOnly>, Alloc<> >; TVertexDescriptor = unsigned int; TValue = int; TCargo = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1532:18: required from 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String > >, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = String >]' - 1532 | findIntervals(result, g, pm, act_knot, query_begin, query_end); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1513:18: required from 'void seqan::findIntervals(String&, const IntervalTree&, TValue2, TValue2) [with TValue = int; TCargo = String >; TValue2 = int]' - 1513 | findIntervals(result, tree.g, tree.pm, query_begin, query_end); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp:49:18: required from here - 49 | findIntervals(results, tree, delBegin, delEnd); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1562:18: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1562 | act_prop = property(pm, act_knot); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1575:23: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1575 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1598:27: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1598 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'bool seqan::removeInterval(Graph&, TPropertyMap&, TVertexDescriptor&, TValue, TValue, TCargo) [with TSpec = Directed >; TPropertyMap = String > >, StorePointsOnly>, Alloc<> >; TVertexDescriptor = unsigned int; TValue = int; TCargo = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1882:26: required from 'bool seqan::removeInterval(Graph&, TPropertyMap&, TValue, TValue, TCargo) [with TSpec = Directed >; TPropertyMap = String > >, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = String >]' - 1882 | return removeInterval(g, pm, act_knot, i_begin, i_end, i_id); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1893:26: required from 'bool seqan::removeInterval(IntervalTree&, TValue, TValue, TCargo) [with TValue = int; TCargo = String >]' - 1893 | return removeInterval(tree.g, tree.pm, i_begin, i_end, i_id); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp:66:30: required from here - 66 | bool res = removeInterval(tree, 50, 200, iCargo); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1779:18: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1779 | act_prop = property(pm, act_knot); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1786:23: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1786 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1802:27: warning: implicitly-declared 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>& seqan::IntervalTreeNode > >, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode > >, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1802 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > >, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ +[ 84%] Linking CXX executable ../bin/demo_tutorial_string_sets_assignment_1_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -248777,113 +248920,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 84%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_interval_tree -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_interval_tree -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 84%] Built target demo_tutorial_simple_rna_seq_interval_tree -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 84%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_1_solution.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_1_solution.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_1_solution.cpp:1: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -[ 84%] Linking CXX executable ../bin/demo_tutorial_string_sets_assignment_1_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/link.d CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o -o ../bin/demo_tutorial_string_sets_assignment_1_solution -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 84%] Built target demo_tutorial_string_sets_assignment_1_solution @@ -249091,6 +249127,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 84%] Linking CXX executable ../bin/demo_tutorial_string_sets_assignment_2_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/link.d CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/tutorial/string_sets/assignment_2_solution.cpp.o -o ../bin/demo_tutorial_string_sets_assignment_2_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 84%] Built target demo_tutorial_string_sets_assignment_2_solution +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 85%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_3_workshop_solution.cpp In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -249318,34 +249367,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, - inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -[ 84%] Linking CXX executable ../bin/demo_tutorial_string_sets_assignment_2_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/link.d CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/tutorial/string_sets/assignment_2_solution.cpp.o -o ../bin/demo_tutorial_string_sets_assignment_2_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 84%] Built target demo_tutorial_string_sets_assignment_2_solution -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 85%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_3_workshop_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -249438,13 +249459,26 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 85%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution5 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution5 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, + inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ [ 85%] Linking CXX executable ../bin/demo_tutorial_string_sets_assignment_3_workshop_solution cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/link.txt --verbose=1 -[ 85%] Built target demo_tutorial_simple_rna_seq_genequant_solution5 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/link.d CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o -o ../bin/demo_tutorial_string_sets_assignment_3_workshop_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 85%] Built target demo_tutorial_string_sets_assignment_3_workshop_solution make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/DependInfo.cmake "--color=" @@ -249453,17 +249487,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 85%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_4_workshop_solution.cpp -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/link.d CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o -o ../bin/demo_tutorial_string_sets_assignment_3_workshop_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 85%] Built target demo_tutorial_string_sets_assignment_3_workshop_solution -make -f demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_base.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_base.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 85%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -249556,11 +249579,24 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 85%] Linking CXX executable ../bin/demo_tutorial_string_sets_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_base.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_base.dir/link.d CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o -o ../bin/demo_tutorial_string_sets_base -lrt -lz -lbz2 +[ 85%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution5 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution5 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 85%] Built target demo_tutorial_string_sets_base +[ 85%] Built target demo_tutorial_simple_rna_seq_genequant_solution5 +make -f demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_base.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_base.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 85%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/base.cpp +[ 85%] Linking CXX executable ../bin/demo_tutorial_string_sets_assignment_4_workshop_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/link.d CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o -o ../bin/demo_tutorial_string_sets_assignment_4_workshop_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 85%] Built target demo_tutorial_string_sets_assignment_4_workshop_solution make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/DependInfo.cmake "--color=" @@ -249569,6 +249605,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 85%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/tutorial/string_sets/example_functionality.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/tutorial/string_sets/example_functionality.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/tutorial/string_sets/example_functionality.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/tutorial/string_sets/example_functionality.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality.cpp +[ 85%] Linking CXX executable ../bin/demo_tutorial_string_sets_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_base.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_base.dir/link.d CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o -o ../bin/demo_tutorial_string_sets_base -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 85%] Built target demo_tutorial_string_sets_base +make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 85%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality_2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -249657,19 +249706,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 85%] Linking CXX executable ../bin/demo_tutorial_string_sets_assignment_4_workshop_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/link.d CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o -o ../bin/demo_tutorial_string_sets_assignment_4_workshop_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 85%] Built target demo_tutorial_string_sets_assignment_4_workshop_solution -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 85%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality_2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -249771,6 +249807,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 85%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/tutorial/string_sets/example_iterators.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/tutorial/string_sets/example_iterators.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/tutorial/string_sets/example_iterators.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/tutorial/string_sets/example_iterators.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_iterators.cpp +[ 85%] Linking CXX executable ../bin/demo_tutorial_string_sets_example_functionality_2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/link.d CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o -o ../bin/demo_tutorial_string_sets_example_functionality_2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 85%] Built target demo_tutorial_string_sets_example_functionality_2 +make -f demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 86%] Building CXX object demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o -MF CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o.d -o CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -249859,25 +249908,10 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 85%] Linking CXX executable ../bin/demo_tutorial_string_sets_example_functionality_2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/link.d CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o -o ../bin/demo_tutorial_string_sets_example_functionality_2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 85%] Built target demo_tutorial_string_sets_example_functionality_2 -make -f demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 86%] Building CXX object demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o -MF CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o.d -o CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/base.cpp [ 86%] Linking CXX executable ../bin/demo_tutorial_vcf_io_base cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_vcf_io_base.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_vcf_io_base.dir/link.d CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o -o ../bin/demo_tutorial_vcf_io_base -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 86%] Linking CXX executable ../bin/demo_tutorial_string_sets_example_iterators -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/link.txt --verbose=1 [ 86%] Built target demo_tutorial_vcf_io_base make -f demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -249887,6 +249921,8 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 86%] Building CXX object demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/tutorial/vcf_io/example1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/tutorial/vcf_io/example1.cpp.o -MF CMakeFiles/demo_tutorial_vcf_io_example1.dir/tutorial/vcf_io/example1.cpp.o.d -o CMakeFiles/demo_tutorial_vcf_io_example1.dir/tutorial/vcf_io/example1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp +[ 86%] Linking CXX executable ../bin/demo_tutorial_string_sets_example_iterators +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/link.d CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/tutorial/string_sets/example_iterators.cpp.o -o ../bin/demo_tutorial_string_sets_example_iterators -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 86%] Built target demo_tutorial_string_sets_example_iterators @@ -249979,6 +250015,67 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp:8:84: required from here + 8 | VcfFileIn vcfIn(toCString(getAbsolutePath("demos/tutorial/vcf_io/example.vcf"))); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp:8:84: required from here + 8 | VcfFileIn vcfIn(toCString(getAbsolutePath("demos/tutorial/vcf_io/example.vcf"))); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io.h:45, @@ -250018,13 +250115,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 228 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ @@ -250081,13 +250171,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]': @@ -250112,30 +250195,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp:8:84: required from here - 8 | VcfFileIn vcfIn(toCString(getAbsolutePath("demos/tutorial/vcf_io/example.vcf"))); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -250159,29 +250218,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp:8:84: required from here - 8 | VcfFileIn vcfIn(toCString(getAbsolutePath("demos/tutorial/vcf_io/example.vcf"))); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); @@ -250190,7 +250226,7 @@ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::readRecord(VcfRecord&, VcfIOContext&, TForwardIter&, const Vcf&) [with TForwardIter = Iter, std::char_traits >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io/read_vcf.h:192:43, inlined from 'void seqan::readRecord(VcfRecord&, FormattedFile, Tag, TSpec>&) [with TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io/vcf_file.h:209:15, - inlined from 'int main()' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution1.cpp:23:19: + inlined from 'int main()' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp:23:19: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] 255 | throw BadLexicalCast(target, source); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -250209,7 +250245,7 @@ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::readRecord(VcfRecord&, VcfIOContext&, TForwardIter&, const Vcf&) [with TForwardIter = Iter, std::char_traits >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io/read_vcf.h:192:43, inlined from 'void seqan::readRecord(VcfRecord&, FormattedFile, Tag, TSpec>&) [with TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io/vcf_file.h:209:15, - inlined from 'int main()' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp:23:19: + inlined from 'int main()' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution1.cpp:23:19: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] 255 | throw BadLexicalCast(target, source); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -250220,32 +250256,32 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 86%] Linking CXX executable ../bin/demo_tutorial_vcf_io_solution1 [ 86%] Linking CXX executable ../bin/demo_tutorial_vcf_io_example1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_vcf_io_example1.dir/link.txt --verbose=1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_vcf_io_solution1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_vcf_io_example1.dir/link.d CMakeFiles/demo_tutorial_vcf_io_example1.dir/tutorial/vcf_io/example1.cpp.o -o ../bin/demo_tutorial_vcf_io_example1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_vcf_io_solution1.dir/link.d CMakeFiles/demo_tutorial_vcf_io_solution1.dir/tutorial/vcf_io/solution1.cpp.o -o ../bin/demo_tutorial_vcf_io_solution1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 86%] Built target demo_tutorial_vcf_io_example1 -[ 86%] Built target demo_tutorial_vcf_io_solution1 make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/depend -make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 86%] Building CXX object demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/tutorial/vcf_io/solution2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/tutorial/vcf_io/solution2.cpp.o -MF CMakeFiles/demo_tutorial_vcf_io_solution2.dir/tutorial/vcf_io/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_vcf_io_solution2.dir/tutorial/vcf_io/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution2.cpp +[ 86%] Linking CXX executable ../bin/demo_tutorial_vcf_io_solution1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_vcf_io_solution1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_vcf_io_solution1.dir/link.d CMakeFiles/demo_tutorial_vcf_io_solution1.dir/tutorial/vcf_io/solution1.cpp.o -o ../bin/demo_tutorial_vcf_io_solution1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build +[ 86%] Built target demo_tutorial_vcf_io_solution1 +make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 86%] Building CXX object demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/tutorial/vcf_io/solution3.cpp.o -[ 86%] Building CXX object demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/tutorial/vcf_io/solution2.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/tutorial/vcf_io/solution3.cpp.o -MF CMakeFiles/demo_tutorial_vcf_io_solution3.dir/tutorial/vcf_io/solution3.cpp.o.d -o CMakeFiles/demo_tutorial_vcf_io_solution3.dir/tutorial/vcf_io/solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution3.cpp -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/tutorial/vcf_io/solution2.cpp.o -MF CMakeFiles/demo_tutorial_vcf_io_solution2.dir/tutorial/vcf_io/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_vcf_io_solution2.dir/tutorial/vcf_io/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io.h:45, @@ -250327,6 +250363,67 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution2.cpp:10:88: required from here + 10 | VcfFileIn vcfIn(toCString(getAbsolutePath("demos/tutorial/vcf_io/example.vcf"))); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution2.cpp:10:88: required from here + 10 | VcfFileIn vcfIn(toCString(getAbsolutePath("demos/tutorial/vcf_io/example.vcf"))); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io.h:45, @@ -250415,13 +250512,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -250429,62 +250519,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution2.cpp:10:88: required from here - 10 | VcfFileIn vcfIn(toCString(getAbsolutePath("demos/tutorial/vcf_io/example.vcf"))); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution2.cpp:10:88: required from here - 10 | VcfFileIn vcfIn(toCString(getAbsolutePath("demos/tutorial/vcf_io/example.vcf"))); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -[ 86%] Linking CXX executable ../bin/demo_tutorial_vcf_io_solution3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_vcf_io_solution3.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); @@ -250504,6 +250538,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 86%] Linking CXX executable ../bin/demo_tutorial_vcf_io_solution3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_vcf_io_solution3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_vcf_io_solution3.dir/link.d CMakeFiles/demo_tutorial_vcf_io_solution3.dir/tutorial/vcf_io/solution3.cpp.o -o ../bin/demo_tutorial_vcf_io_solution3 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 86%] Built target demo_tutorial_vcf_io_solution3 @@ -250517,6 +250553,17 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/tutorial/workflows/knime_node.cpp.o -MF CMakeFiles/demo_tutorial_workflows_knime_node.dir/tutorial/workflows/knime_node.cpp.o.d -o CMakeFiles/demo_tutorial_workflows_knime_node.dir/tutorial/workflows/knime_node.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/workflows/knime_node.cpp [ 86%] Linking CXX executable ../bin/demo_tutorial_vcf_io_solution2 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_vcf_io_solution2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_vcf_io_solution2.dir/link.d CMakeFiles/demo_tutorial_vcf_io_solution2.dir/tutorial/vcf_io/solution2.cpp.o -o ../bin/demo_tutorial_vcf_io_solution2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 86%] Built target demo_tutorial_vcf_io_solution2 +make -f demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 86%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/unassigned_or_unused/alphabet.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/unassigned_or_unused/alphabet.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_alphabet.dir/unassigned_or_unused/alphabet.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_alphabet.dir/unassigned_or_unused/alphabet.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/alphabet.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -250606,6 +250653,8 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 87%] Linking CXX executable ../bin/demo_unassigned_or_unused_alphabet +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_alphabet.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -250613,6 +250662,8 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_alphabet.dir/link.d CMakeFiles/demo_unassigned_or_unused_alphabet.dir/unassigned_or_unused/alphabet.cpp.o -o ../bin/demo_unassigned_or_unused_alphabet -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 221 | struct QualityExtractor : public std::unary_function @@ -250620,17 +250671,15 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_vcf_io_solution2.dir/link.d CMakeFiles/demo_tutorial_vcf_io_solution2.dir/tutorial/vcf_io/solution2.cpp.o -o ../bin/demo_tutorial_vcf_io_solution2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 86%] Built target demo_tutorial_vcf_io_solution2 -make -f demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/depend +[ 87%] Built target demo_unassigned_or_unused_alphabet +make -f demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 86%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/unassigned_or_unused/alphabet.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/unassigned_or_unused/alphabet.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_alphabet.dir/unassigned_or_unused/alphabet.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_alphabet.dir/unassigned_or_unused/alphabet.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/alphabet.cpp +[ 87%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/annotation_converter.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -250879,42 +250928,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/workflows/knime_node.cpp:139:49: required from here - 139 | SeqFileIn seqIn(toCString(options.inputFile)); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 87%] Linking CXX executable ../bin/demo_unassigned_or_unused_alphabet -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_alphabet.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_alphabet.dir/link.d CMakeFiles/demo_unassigned_or_unused_alphabet.dir/unassigned_or_unused/alphabet.cpp.o -o ../bin/demo_unassigned_or_unused_alphabet -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 87%] Built target demo_unassigned_or_unused_alphabet -make -f demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 87%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/annotation_converter.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -250999,6 +251012,29 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/workflows/knime_node.cpp:139:49: required from here + 139 | SeqFileIn seqIn(toCString(options.inputFile)); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -251384,11 +251420,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/ucsc_io/ucsc_io.h:314:17: note: 'tempEnd' declared here 314 | int32_t tempEnd; | ^~~~~~~ -[ 87%] Linking CXX executable ../bin/demo_tutorial_workflows_knime_node -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_workflows_knime_node.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_workflows_knime_node.dir/link.d CMakeFiles/demo_tutorial_workflows_knime_node.dir/tutorial/workflows/knime_node.cpp.o -o ../bin/demo_tutorial_workflows_knime_node -lrt -lz -lbz2 +[ 87%] Linking CXX executable ../bin/demo_unassigned_or_unused_annotation_converter +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/link.d CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o -o ../bin/demo_unassigned_or_unused_annotation_converter -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 87%] Built target demo_tutorial_workflows_knime_node +[ 87%] Built target demo_unassigned_or_unused_annotation_converter make -f demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/DependInfo.cmake "--color=" @@ -251397,6 +251433,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 87%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/unassigned_or_unused/arg_align.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/unassigned_or_unused/arg_align.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_arg_align.dir/unassigned_or_unused/arg_align.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_arg_align.dir/unassigned_or_unused/arg_align.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/arg_align.cpp +[ 87%] Linking CXX executable ../bin/demo_tutorial_workflows_knime_node +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_workflows_knime_node.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_workflows_knime_node.dir/link.d CMakeFiles/demo_tutorial_workflows_knime_node.dir/tutorial/workflows/knime_node.cpp.o -o ../bin/demo_tutorial_workflows_knime_node -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 87%] Built target demo_tutorial_workflows_knime_node +make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 87%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bam_library_size.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/arg_align.cpp:26: @@ -251520,19 +251569,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 87%] Linking CXX executable ../bin/demo_unassigned_or_unused_annotation_converter -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/link.d CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o -o ../bin/demo_unassigned_or_unused_annotation_converter -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 87%] Built target demo_unassigned_or_unused_annotation_converter -make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 87%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bam_library_size.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -251733,6 +251769,27 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ [ 87%] Linking CXX executable ../bin/demo_unassigned_or_unused_arg_align cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_arg_align.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_arg_align.dir/link.d CMakeFiles/demo_unassigned_or_unused_arg_align.dir/unassigned_or_unused/arg_align.cpp.o -o ../bin/demo_unassigned_or_unused_arg_align -lrt -lz -lbz2 @@ -251746,27 +251803,269 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 87%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/unassigned_or_unused/bam_print_alignments.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/unassigned_or_unused/bam_print_alignments.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/unassigned_or_unused/bam_print_alignments.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/unassigned_or_unused/bam_print_alignments.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bam_print_alignments.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] 255 | throw BadLexicalCast(target, source); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:277:40: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here 72 | BadLexicalCast(TTarget const & target, TSource const & source) : | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] 255 | throw BadLexicalCast(target, source); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here 72 | BadLexicalCast(TTarget const & target, TSource const & source) : | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bam_print_alignments.cpp:44: @@ -252137,269 +252436,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:277:40: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ [ 87%] Linking CXX executable ../bin/demo_unassigned_or_unused_bam_library_size cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/link.d CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o -o ../bin/demo_unassigned_or_unused_bam_library_size -lrt -lz -lbz2 @@ -252544,17 +252580,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -252601,6 +252626,17 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] 255 | throw BadLexicalCast(target, source); @@ -254012,6 +254048,8 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 88%] Linking CXX executable ../bin/demo_unassigned_or_unused_benchmark_stream_write +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -254058,6 +254096,8 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/link.d CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/unassigned_or_unused/benchmark_stream_write.cpp.o -o ../bin/demo_unassigned_or_unused_benchmark_stream_write -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -254080,6 +254120,7 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +[ 88%] Built target demo_unassigned_or_unused_benchmark_stream_write In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): @@ -254106,6 +254147,14 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 88%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/file_readwrite.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -254251,19 +254300,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 88%] Linking CXX executable ../bin/demo_unassigned_or_unused_benchmark_stream_write -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/link.d CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/unassigned_or_unused/benchmark_stream_write.cpp.o -o ../bin/demo_unassigned_or_unused_benchmark_stream_write -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 88%] Built target demo_unassigned_or_unused_benchmark_stream_write -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 88%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/file_readwrite.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -254457,11 +254493,11 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 88%] Linking CXX executable ../bin/demo_unassigned_or_unused_file_format -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_file_format.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_file_format.dir/link.d CMakeFiles/demo_unassigned_or_unused_file_format.dir/unassigned_or_unused/file_format.cpp.o -o ../bin/demo_unassigned_or_unused_file_format -lrt -lz -lbz2 +[ 88%] Linking CXX executable ../bin/demo_unassigned_or_unused_file_speed +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_file_speed.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_file_speed.dir/link.d CMakeFiles/demo_unassigned_or_unused_file_speed.dir/unassigned_or_unused/file_speed.cpp.o -o ../bin/demo_unassigned_or_unused_file_speed -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 88%] Built target demo_unassigned_or_unused_file_format +[ 88%] Built target demo_unassigned_or_unused_file_speed make -f demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/DependInfo.cmake "--color=" @@ -254470,6 +254506,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 88%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/unassigned_or_unused/filter_sam.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/unassigned_or_unused/filter_sam.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/unassigned_or_unused/filter_sam.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/unassigned_or_unused/filter_sam.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/filter_sam.cpp +[ 88%] Linking CXX executable ../bin/demo_unassigned_or_unused_file_format +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_file_format.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_file_format.dir/link.d CMakeFiles/demo_unassigned_or_unused_file_format.dir/unassigned_or_unused/file_format.cpp.o -o ../bin/demo_unassigned_or_unused_file_format -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 88%] Built target demo_unassigned_or_unused_file_format +make -f demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 88%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/find_wild.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -254562,19 +254611,90 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 88%] Linking CXX executable ../bin/demo_unassigned_or_unused_file_speed -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_file_speed.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_file_speed.dir/link.d CMakeFiles/demo_unassigned_or_unused_file_speed.dir/unassigned_or_unused/file_speed.cpp.o -o ../bin/demo_unassigned_or_unused_file_speed -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 88%] Built target demo_unassigned_or_unused_file_speed -make -f demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 88%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/find_wild.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/find_wild.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/find_wild.cpp:2: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -254658,6 +254778,31 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -254709,90 +254854,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/find_wild.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/find_wild.cpp:2: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -254945,16 +255006,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' @@ -255311,21 +255362,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -256798,36 +256834,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, - inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, - inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -256978,6 +256984,36 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, + inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, + inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -261861,6 +261897,8 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 90%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/unassigned_or_unused/index_sufarray.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/unassigned_or_unused/index_sufarray.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/unassigned_or_unused/index_sufarray.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/unassigned_or_unused/index_sufarray.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_sufarray.cpp +[ 90%] Linking CXX executable ../bin/demo_unassigned_or_unused_index_mums +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_index_mums.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -262011,6 +262049,17 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_index_mums.dir/link.d CMakeFiles/demo_unassigned_or_unused_index_mums.dir/unassigned_or_unused/index_mums.cpp.o -o ../bin/demo_unassigned_or_unused_index_mums -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 90%] Built target demo_unassigned_or_unused_index_mums +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 90%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_supermaxrepeats.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -262261,32 +262310,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 90%] Linking CXX executable ../bin/demo_unassigned_or_unused_index_sufarray -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/link.d CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/unassigned_or_unused/index_sufarray.cpp.o -o ../bin/demo_unassigned_or_unused_index_sufarray -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 90%] Built target demo_unassigned_or_unused_index_sufarray -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 90%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_supermaxrepeats.cpp -[ 90%] Linking CXX executable ../bin/demo_unassigned_or_unused_index_mums -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_index_mums.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_index_mums.dir/link.d CMakeFiles/demo_unassigned_or_unused_index_mums.dir/unassigned_or_unused/index_mums.cpp.o -o ../bin/demo_unassigned_or_unused_index_mums -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 90%] Built target demo_unassigned_or_unused_index_mums -make -f demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 90%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/iterator.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -262687,6 +262710,103 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index > >; TSpec = BottomUp<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index > >; TSpec = BottomUp<>]' + 2236 | _clear(it); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1605:14: required from 'void seqan::goBegin(Iter >, VSTree > >&) [with TText = String >; TIndexSpec = void; TSpec = Postorder]' + 1605 | clear(it); // start in root node with range (0,infty) + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:453:20: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >; TSpec = seqan::Postorder]' + 453 | goBegin(*this); + | ~~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_algs.h:121:33: required from 'seqan::Iter > >::Iter(TSTree&, TSize) [with TSTree = seqan::Index > >; TSize = long unsigned int]' + 121 | minLength(_minLength) + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_supermaxrepeats.cpp:18:74: required from here + 18 | Iterator::Type myRepeatIterator(myIndex, 3); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:137: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 392 | return _beginDefault(me, tag_); + | ~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 515 | return begin(cont, Rooted()); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' + 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' + 789 | write(it, source); + | ~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_supermaxrepeats.cpp:33:63: required from here + 33 | std::cout << "\t\"" << representative(myRepeatIterator) << '\"' << std::endl; + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 351 | return TIterator(me, begin(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' + 116 | Iter(typename Parameter_::Type container_, TIterator it_) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' + 117 | : data_container(_toPointer(container_)), + | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: required from 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]' + 351 | return TIterator(me, begin(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 392 | return _beginDefault(me, tag_); + | ~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 515 | return begin(cont, Rooted()); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' + 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' + 789 | write(it, source); + | ~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_supermaxrepeats.cpp:33:63: required from here + 33 | std::cout << "\t\"" << representative(myRepeatIterator) << '\"' << std::endl; + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +[ 90%] Linking CXX executable ../bin/demo_unassigned_or_unused_index_sufarray +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/link.d CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/unassigned_or_unused/index_sufarray.cpp.o -o ../bin/demo_unassigned_or_unused_index_sufarray -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 90%] Built target demo_unassigned_or_unused_index_sufarray +make -f demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 90%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/iterator.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -262779,95 +262899,13 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index > >; TSpec = BottomUp<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index > >; TSpec = BottomUp<>]' - 2236 | _clear(it); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1605:14: required from 'void seqan::goBegin(Iter >, VSTree > >&) [with TText = String >; TIndexSpec = void; TSpec = Postorder]' - 1605 | clear(it); // start in root node with range (0,infty) - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:453:20: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >; TSpec = seqan::Postorder]' - 453 | goBegin(*this); - | ~~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_algs.h:121:33: required from 'seqan::Iter > >::Iter(TSTree&, TSize) [with TSTree = seqan::Index > >; TSize = long unsigned int]' - 121 | minLength(_minLength) - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_supermaxrepeats.cpp:18:74: required from here - 18 | Iterator::Type myRepeatIterator(myIndex, 3); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:137: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 392 | return _beginDefault(me, tag_); - | ~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 515 | return begin(cont, Rooted()); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' - 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' - 789 | write(it, source); - | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_supermaxrepeats.cpp:33:63: required from here - 33 | std::cout << "\t\"" << representative(myRepeatIterator) << '\"' << std::endl; - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 351 | return TIterator(me, begin(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' - 116 | Iter(typename Parameter_::Type container_, TIterator it_) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' - 117 | : data_container(_toPointer(container_)), - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: required from 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]' - 351 | return TIterator(me, begin(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 392 | return _beginDefault(me, tag_); - | ~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 515 | return begin(cont, Rooted()); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' - 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' - 789 | write(it, source); - | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_supermaxrepeats.cpp:33:63: required from here - 33 | std::cout << "\t\"" << representative(myRepeatIterator) << '\"' << std::endl; - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ +[ 90%] Linking CXX executable ../bin/demo_unassigned_or_unused_index_supermaxrepeats +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/link.d CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o -o ../bin/demo_unassigned_or_unused_index_supermaxrepeats -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 90%] Linking CXX executable ../bin/demo_unassigned_or_unused_iterator cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_iterator.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_iterator.dir/link.d CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o -o ../bin/demo_unassigned_or_unused_iterator -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 90%] Built target demo_unassigned_or_unused_iterator +[ 90%] Built target demo_unassigned_or_unused_index_supermaxrepeats make -f demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/DependInfo.cmake "--color=" @@ -262876,6 +262914,17 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 90%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/minimapper.cpp +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_iterator.dir/link.d CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o -o ../bin/demo_unassigned_or_unused_iterator -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 90%] Built target demo_unassigned_or_unused_iterator +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 90%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modreverse.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -262961,6 +263010,98 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modreverse.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modreverse.cpp:2: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -263027,19 +263168,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 90%] Linking CXX executable ../bin/demo_unassigned_or_unused_index_supermaxrepeats -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/link.d CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o -o ../bin/demo_unassigned_or_unused_index_supermaxrepeats -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 90%] Built target demo_unassigned_or_unused_index_supermaxrepeats -make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 90%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modreverse.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -263313,54 +263441,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modreverse.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modreverse.cpp:2: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -263368,39 +263448,21 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 362 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 372 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 382 | public std::binary_function | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ @@ -263416,25 +263478,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 2155 | public std::binary_function< @@ -263442,13 +263485,8 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ +[ 91%] Linking CXX executable ../bin/demo_unassigned_or_unused_modifier_modreverse +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -263475,6 +263513,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/link.d CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o -o ../bin/demo_unassigned_or_unused_modifier_modreverse -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -263525,6 +263565,7 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 91%] Built target demo_unassigned_or_unused_modifier_modreverse In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -263609,6 +263650,7 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TFunctor = seqan::FunctorComplement >; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/depend /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -263666,6 +263708,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 91%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modview.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -263726,8 +263775,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram_openaddressing.h:143:9: note: because 'seqan::Index, seqan::Alloc<> >, seqan::Owner > >, seqan::IndexQGram, seqan::Tag > >' has user-provided 'seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet, seqan::Alloc<> >, seqan::Owner > >; TShapeSpec = seqan::UngappedShape<11>]' 143 | Index(Index const &other): | ^~~~~ -[ 91%] Linking CXX executable ../bin/demo_unassigned_or_unused_modifier_modreverse -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' @@ -264002,8 +264049,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/link.d CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o -o ../bin/demo_unassigned_or_unused_modifier_modreverse -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >, seqan::Tag >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, InfixSegment>, ModView > > >, Tag >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, InfixSegment>, ModView > > >, Tag >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' 205 | return TProxy(it); @@ -264115,15 +264160,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -[ 91%] Built target demo_unassigned_or_unused_modifier_modreverse -make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 91%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modview.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag; TIntegral = long int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:169:56: required from 'typename seqan::Source > > >::Type seqan::source(const Iter > >&) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Source > > >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' 169 | return begin(source(*me.data_container), Rooted()) + me.current.seqPos; @@ -264852,19 +264888,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 91%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/unassigned_or_unused/sam2svg.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/unassigned_or_unused/sam2svg.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/unassigned_or_unused/sam2svg.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/unassigned_or_unused/sam2svg.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sam2svg.cpp -[ 91%] Linking CXX executable ../bin/demo_unassigned_or_unused_minimapper -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_minimapper.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_minimapper.dir/link.d CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o -o ../bin/demo_unassigned_or_unused_minimapper -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 91%] Built target demo_unassigned_or_unused_minimapper -make -f demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 91%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -264988,91 +265011,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:43: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:37: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -265081,21 +265019,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -265140,38 +265063,19 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ +[ 91%] Linking CXX executable ../bin/demo_unassigned_or_unused_minimapper +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_minimapper.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_minimapper.dir/link.d CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o -o ../bin/demo_unassigned_or_unused_minimapper -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 91%] Built target demo_unassigned_or_unused_minimapper +make -f demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 91%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ofstream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' @@ -265268,52 +265172,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' 88 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -265409,153 +265267,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:42: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:66:14: required from here - 66 | if (!open(seqFileIn, argv[1])) - | ~~~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:66:14: required from here - 66 | if (!open(seqFileIn, argv[1])) - | ~~~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:66:14: required from here - 66 | if (!open(seqFileIn, argv[1])) - | ~~~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -265587,52 +265298,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:66:14: required from here - 66 | if (!open(seqFileIn, argv[1])) - | ~~~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:66:14: required from here - 66 | if (!open(seqFileIn, argv[1])) - | ~~~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -265895,6 +265560,398 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:43: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:37: +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:42: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:66:14: required from here + 66 | if (!open(seqFileIn, argv[1])) + | ~~~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:66:14: required from here + 66 | if (!open(seqFileIn, argv[1])) + | ~~~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:66:14: required from here + 66 | if (!open(seqFileIn, argv[1])) + | ~~~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:66:14: required from here + 66 | if (!open(seqFileIn, argv[1])) + | ~~~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:66:14: required from here + 66 | if (!open(seqFileIn, argv[1])) + | ~~~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ [ 92%] Linking CXX executable ../bin/demo_unassigned_or_unused_sample_seqs cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/link.d CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o -o ../bin/demo_unassigned_or_unused_sample_seqs -lrt -lz -lbz2 @@ -266059,27 +266116,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -269170,19 +269206,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 92%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/unassigned_or_unused/tutorial_file_io/mmap_string_example.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/unassigned_or_unused/tutorial_file_io/mmap_string_example.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/unassigned_or_unused/tutorial_file_io/mmap_string_example.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/unassigned_or_unused/tutorial_file_io/mmap_string_example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_file_io/mmap_string_example.cpp -[ 92%] Linking CXX executable ../bin/demo_unassigned_or_unused_segmentalignment -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/link.d CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/unassigned_or_unused/segmentalignment.cpp.o -o ../bin/demo_unassigned_or_unused_segmentalignment -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 92%] Built target demo_unassigned_or_unused_segmentalignment -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 93%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_file_io/solution1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -269275,6 +269298,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 92%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/unassigned_or_unused/tutorial_file_io/mmap_string_example.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 92%] Built target demo_unassigned_or_unused_tutorial_file_io_mmap_string_example +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 93%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_file_io/solution1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -269367,11 +269403,11 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/unassigned_or_unused/tutorial_file_io/mmap_string_example.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example -lrt -lz -lbz2 +[ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_segmentalignment +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/link.d CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/unassigned_or_unused/segmentalignment.cpp.o -o ../bin/demo_unassigned_or_unused_segmentalignment -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 93%] Built target demo_unassigned_or_unused_tutorial_file_io_mmap_string_example +[ 93%] Built target demo_unassigned_or_unused_segmentalignment make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/DependInfo.cmake "--color=" @@ -269471,11 +269507,13 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/link.txt --verbose=1 [ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_file_io_solution1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_file_io_solution1 -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/unassigned_or_unused/tutorial_file_io/stream_compression_formats.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 93%] Built target demo_unassigned_or_unused_tutorial_file_io_solution1 +[ 93%] Built target demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/DependInfo.cmake "--color=" @@ -269484,11 +269522,9 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 93%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/unassigned_or_unused/tutorial_sequence/count_characters.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/unassigned_or_unused/tutorial_sequence/count_characters.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/unassigned_or_unused/tutorial_sequence/count_characters.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/unassigned_or_unused/tutorial_sequence/count_characters.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/count_characters.cpp -[ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/unassigned_or_unused/tutorial_file_io/stream_compression_formats.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_file_io_solution1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 93%] Built target demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats +[ 93%] Built target demo_unassigned_or_unused_tutorial_file_io_solution1 make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/DependInfo.cmake "--color=" @@ -269499,23 +269535,23 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/unassigned_or_unused/tutorial_sequence/count_generic_characters.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/unassigned_or_unused/tutorial_sequence/count_generic_characters.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/unassigned_or_unused/tutorial_sequence/count_generic_characters.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/count_generic_characters.cpp [ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_sequence_count_characters cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/link.txt --verbose=1 +[ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/unassigned_or_unused/tutorial_sequence/count_characters.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_sequence_count_characters -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 93%] Built target demo_unassigned_or_unused_tutorial_sequence_count_characters make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/unassigned_or_unused/tutorial_sequence/count_generic_characters.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 93%] Built target demo_unassigned_or_unused_tutorial_sequence_count_generic_characters +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/depend make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 93%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/unassigned_or_unused/tutorial_sequence/replace_as.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/unassigned_or_unused/tutorial_sequence/replace_as.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/unassigned_or_unused/tutorial_sequence/replace_as.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/unassigned_or_unused/tutorial_sequence/replace_as.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/replace_as.cpp -[ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/unassigned_or_unused/tutorial_sequence/count_generic_characters.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 93%] Built target demo_unassigned_or_unused_tutorial_sequence_count_generic_characters -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -269608,13 +269644,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -269639,12 +269668,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 147 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 219 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ @@ -269709,25 +269745,25 @@ | ^~~~~~~~~~~~~~ [ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_sequence_replace_as cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/link.txt --verbose=1 +[ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/unassigned_or_unused/tutorial_sequence/replace_as.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_sequence_replace_as -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 93%] Built target demo_unassigned_or_unused_tutorial_sequence_replace_as make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 94%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp -[ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 94%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings +[ 93%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/DependInfo.cmake "--color=" +[ 94%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -269818,13 +269854,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -269917,36 +269946,43 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ [ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 94%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 94%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp [ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_example1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo -lrt -lz -lbz2 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/unassigned_or_unused/tutorials_custim_io/example1.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_example1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 94%] Built target demo_unassigned_or_unused_tutorials_custim_io_example1 +[ 94%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/depend make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 94%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o +[ 94%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp:6: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp:7: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -269957,7 +269993,7 @@ from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp:2: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -270038,7 +270074,7 @@ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp:7: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp:6: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -270049,7 +270085,7 @@ from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp:2: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -270127,36 +270163,36 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 [ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/link.txt --verbose=1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 -lrt -lz -lbz2 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 94%] Built target demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 [ 94%] Built target demo_unassigned_or_unused_tutorials_custim_io_parse_blastn make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 94%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp -[ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 94%] Built target demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 94%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution1.cpp +[ 94%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp:5: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution1.cpp:4: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -270167,7 +270203,7 @@ from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution1.cpp:1: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -270238,17 +270274,10 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution1.cpp:4: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp:5: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -270259,7 +270288,7 @@ from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution1.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp:1: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -270337,11 +270366,18 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_reader_demo -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_reader_demo -lrt -lz -lbz2 +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +[ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 94%] Built target demo_unassigned_or_unused_tutorials_custim_io_reader_demo +[ 94%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution1 make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/DependInfo.cmake "--color=" @@ -270350,11 +270386,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 94%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/unassigned_or_unused/tutorials_custim_io/solution2.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/unassigned_or_unused/tutorials_custim_io/solution2.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/unassigned_or_unused/tutorials_custim_io/solution2.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/unassigned_or_unused/tutorials_custim_io/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution2.cpp -[ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution1 -lrt -lz -lbz2 +[ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_reader_demo +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_reader_demo -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 94%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution1 +[ 94%] Built target demo_unassigned_or_unused_tutorials_custim_io_reader_demo make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/DependInfo.cmake "--color=" @@ -270455,8 +270491,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 95%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -270511,7 +270545,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/unassigned_or_unused/tutorials_custim_io/solution2.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution2 -lrt -lz -lbz2 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 255 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ @@ -270536,7 +270569,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -270544,15 +270576,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 95%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution2 -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 95%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/solution4.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/solution4.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/solution4.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/solution4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution4.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -270560,17 +270583,30 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 95%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/link.txt --verbose=1 [ 95%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution3 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/unassigned_or_unused/tutorials_custim_io/solution2.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/unassigned_or_unused/tutorials_custim_io/solution3.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution3 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 95%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution2 +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/DependInfo.cmake "--color=" [ 95%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution3 make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf/CMakeFiles/alf.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 95%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/solution4.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/solution4.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/solution4.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/solution4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution4.cpp [ 95%] Building CXX object apps/alf/CMakeFiles/alf.dir/alf.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.1.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/alf/CMakeFiles/alf.dir/alf.cpp.o -MF CMakeFiles/alf.dir/alf.cpp.o.d -o CMakeFiles/alf.dir/alf.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf/alf.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, @@ -270665,44 +270701,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = const char*]', - inlined from 'int main(int, const char**)' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution4.cpp:23:33: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int main(int, const char**)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = const char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = const char*]', - inlined from 'int main(int, const char**)' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution4.cpp:24:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int main(int, const char**)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = const char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -[ 95%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution4 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/solution4.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution4 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 95%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution4 -make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/bisar.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 95%] Building CXX object apps/bs_tools/CMakeFiles/bisar.dir/bisar.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.1.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -ffloat-store -ffp-contract=off -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/bs_tools/CMakeFiles/bisar.dir/bisar.cpp.o -MF CMakeFiles/bisar.dir/bisar.cpp.o.d -o CMakeFiles/bisar.dir/bisar.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -270803,6 +270801,44 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = const char*]', + inlined from 'int main(int, const char**)' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution4.cpp:23:33: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int main(int, const char**)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = const char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = const char*]', + inlined from 'int main(int, const char**)' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution4.cpp:24:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int main(int, const char**)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = const char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +[ 95%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution4 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/solution4.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution4 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 95%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution4 +make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/bisar.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 95%] Building CXX object apps/bs_tools/CMakeFiles/bisar.dir/bisar.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.1.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -ffloat-store -ffp-contract=off -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/bs_tools/CMakeFiles/bisar.dir/bisar.cpp.o -MF CMakeFiles/bisar.dir/bisar.cpp.o.d -o CMakeFiles/bisar.dir/bisar.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -270881,102 +270917,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:46, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp:39: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/15/string:51, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp:37: -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/statistics.h:41, @@ -271272,24 +271212,95 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:46, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp:39: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/15/string:51, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp:37: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free.h:54: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:159:20: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 159 | AFScore(unsigned k, unsigned m, bool verbose_ = false) : @@ -271299,75 +271310,10 @@ 333 | AFScore(unsigned k, unsigned m, bool verbose_ = false) : | ^ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:333:17: note: remove the '< >' -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar_score.h:28:57: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 28 | struct FunctorDna5OrdValueComplement : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -271535,33 +271481,30 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' 739 | return _open(file, fileName, openMode, False()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf/alf.cpp:164:13: required from here + 164 | open(seqFile, toCString(inFile)); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp:38: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -271584,6 +271527,122 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar_score.h:28:57: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 28 | struct FunctorDna5OrdValueComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' @@ -271634,29 +271693,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf/alf.cpp:164:13: required from here - 164 | open(seqFile, toCString(inFile)); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' 205 | return TProxy(it); @@ -273279,16 +273315,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -273308,6 +273334,16 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -276974,19 +277010,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -[ 96%] Linking CXX executable ../../bin/compute_gain -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona && /usr/bin/cmake -E cmake_link_script CMakeFiles/compute_gain.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/compute_gain.dir/link.d CMakeFiles/compute_gain.dir/compute_gain.cpp.o -o ../../bin/compute_gain -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 96%] Built target compute_gain -make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/fiona_illumina.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 96%] Building CXX object apps/fiona/CMakeFiles/fiona_illumina.dir/fiona.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona && /usr/bin/c++ -DFIONA_ILLUMINA -DSEQAN_APP_VERSION=\"0.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/fiona/CMakeFiles/fiona_illumina.dir/fiona.cpp.o -MF CMakeFiles/fiona_illumina.dir/fiona.cpp.o.d -o CMakeFiles/fiona_illumina.dir/fiona.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/fiona.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]' 622 | if (handler1) handler1->push(Val_); @@ -277175,6 +277198,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +[ 96%] Linking CXX executable ../../bin/compute_gain +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona && /usr/bin/cmake -E cmake_link_script CMakeFiles/compute_gain.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/compute_gain.dir/link.d CMakeFiles/compute_gain.dir/compute_gain.cpp.o -o ../../bin/compute_gain -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 96%] Built target compute_gain +make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/fiona_illumina.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 96%] Building CXX object apps/fiona/CMakeFiles/fiona_illumina.dir/fiona.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona && /usr/bin/c++ -DFIONA_ILLUMINA -DSEQAN_APP_VERSION=\"0.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/fiona/CMakeFiles/fiona_illumina.dir/fiona.cpp.o -MF CMakeFiles/fiona_illumina.dir/fiona.cpp.o.d -o CMakeFiles/fiona_illumina.dir/fiona.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/fiona.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -279348,27 +279384,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/fx_fastq_stats.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/fx_fastq_stats.cpp.o -MF CMakeFiles/fx_fastq_stats.dir/fx_fastq_stats.cpp.o.d -o CMakeFiles/fx_fastq_stats.dir/fx_fastq_stats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fx_tools/fx_fastq_stats.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -279465,6 +279480,27 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -283058,11 +283094,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 97%] Linking CXX executable ../../bin/mason_genome -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_genome.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/mason_genome.dir/link.d CMakeFiles/mason_genome.dir/mason_genome.cpp.o -o ../../bin/mason_genome -lrt -lz -lbz2 libmason_sim.a -lrt -lz -lbz2 +[ 97%] Linking CXX executable ../../bin/insegt +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/insegt && /usr/bin/cmake -E cmake_link_script CMakeFiles/insegt.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/insegt.dir/link.d CMakeFiles/insegt.dir/insegt.cpp.o -o ../../bin/insegt -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 97%] Built target mason_genome +[ 97%] Built target insegt make -f apps/mason2/CMakeFiles/mason_methylation.dir/build.make apps/mason2/CMakeFiles/mason_methylation.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_methylation.dir/DependInfo.cmake "--color=" @@ -283071,11 +283107,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 97%] Building CXX object apps/mason2/CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o -MF CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o.d -o CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.cpp -[ 97%] Linking CXX executable ../../bin/insegt -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/insegt && /usr/bin/cmake -E cmake_link_script CMakeFiles/insegt.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/insegt.dir/link.d CMakeFiles/insegt.dir/insegt.cpp.o -o ../../bin/insegt -lrt -lz -lbz2 +[ 97%] Linking CXX executable ../../bin/mason_genome +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_genome.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/mason_genome.dir/link.d CMakeFiles/mason_genome.dir/mason_genome.cpp.o -o ../../bin/mason_genome -lrt -lz -lbz2 libmason_sim.a -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 97%] Built target insegt +[ 97%] Built target mason_genome make -f apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build.make apps/mason2/CMakeFiles/mason_frag_sequencing.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/DependInfo.cmake "--color=" @@ -283187,84 +283223,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -283361,6 +283319,103 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/methylation_levels.h:38, @@ -283383,10 +283438,10 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -283428,6 +283483,19 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -283641,59 +283709,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -283740,79 +283755,20 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.cpp:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.cpp:143:14: required from here - 143 | if (!open(outStream, toCString(options.methFastaOutFile))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/methylation_levels.h:38, @@ -283836,57 +283792,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.cpp:143:14: required from here - 143 | if (!open(outStream, toCString(options.methFastaOutFile))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 351 | struct insertBucket : public std::unary_function @@ -283925,29 +283830,13 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.cpp:143:14: required from here - 143 | if (!open(outStream, toCString(options.methFastaOutFile))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -284200,6 +284089,153 @@ 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.cpp:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.cpp:143:14: required from here + 143 | if (!open(outStream, toCString(options.methFastaOutFile))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.cpp:143:14: required from here + 143 | if (!open(outStream, toCString(options.methFastaOutFile))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.cpp:143:14: required from here + 143 | if (!open(outStream, toCString(options.methFastaOutFile))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_frag_sequencing.cpp:38: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) @@ -284621,6 +284657,8 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 97%] Linking CXX executable ../../bin/mason_frag_sequencing +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_frag_sequencing.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -284696,6 +284734,8 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/mason_frag_sequencing.dir/link.d CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o -o ../../bin/mason_frag_sequencing -lrt -lz -lbz2 libmason_sim.a -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -284709,6 +284749,10 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 97%] Built target mason_frag_sequencing +make -f apps/mason2/CMakeFiles/mason_materializer.dir/build.make apps/mason2/CMakeFiles/mason_materializer.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_materializer.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function @@ -284746,6 +284790,9 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/mason2/CMakeFiles/mason_materializer.dir/build.make apps/mason2/CMakeFiles/mason_materializer.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 110 | public std::binary_function < SkewDCStream, @@ -284759,6 +284806,8 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 97%] Building CXX object apps/mason2/CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o -MF CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o.d -o CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_materializer.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function @@ -284855,18 +284904,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 97%] Linking CXX executable ../../bin/mason_frag_sequencing -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_frag_sequencing.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/mason_frag_sequencing.dir/link.d CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o -o ../../bin/mason_frag_sequencing -lrt -lz -lbz2 libmason_sim.a -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 97%] Built target mason_frag_sequencing -make -f apps/mason2/CMakeFiles/mason_materializer.dir/build.make apps/mason2/CMakeFiles/mason_materializer.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_materializer.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/mason2/CMakeFiles/mason_materializer.dir/build.make apps/mason2/CMakeFiles/mason_materializer.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 97%] Building CXX object apps/mason2/CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' @@ -284890,7 +284927,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o -MF CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o.d -o CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_materializer.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -285780,8 +285816,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 97%] Linking CXX executable ../../bin/mason_variator -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_variator.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -285795,8 +285829,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/mason_variator.dir/link.d CMakeFiles/mason_variator.dir/mason_variator.cpp.o -o ../../bin/mason_variator -lrt -lz -lbz2 libmason_sim.a -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -285836,13 +285868,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 97%] Built target mason_variator -make -f apps/mason2/CMakeFiles/mason_splicing.dir/build.make apps/mason2/CMakeFiles/mason_splicing.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_splicing.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/mason2/CMakeFiles/mason_splicing.dir/build.make apps/mason2/CMakeFiles/mason_splicing.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 2155 | public std::binary_function< @@ -285850,8 +285875,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 97%] Building CXX object apps/mason2/CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o -MF CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o.d -o CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_splicing.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/methylation_levels.h:38, @@ -285875,6 +285898,8 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 97%] Linking CXX executable ../../bin/mason_variator +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_variator.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 351 | struct insertBucket : public std::unary_function @@ -285988,6 +286013,17 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/mason_variator.dir/link.d CMakeFiles/mason_variator.dir/mason_variator.cpp.o -o ../../bin/mason_variator -lrt -lz -lbz2 libmason_sim.a -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 97%] Built target mason_variator +make -f apps/mason2/CMakeFiles/mason_splicing.dir/build.make apps/mason2/CMakeFiles/mason_splicing.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_splicing.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/mason2/CMakeFiles/mason_splicing.dir/build.make apps/mason2/CMakeFiles/mason_splicing.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 97%] Building CXX object apps/mason2/CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o -MF CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o.d -o CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_splicing.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -286147,6 +286183,79 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/fragment_generation.h:51: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_simulator.cpp:1155:18: required from here + 1155 | if (!open(outSeqsLeft, toCString(options.outFileNameLeft))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -286236,94 +286345,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/fragment_generation.h:51: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_simulator.cpp:1155:18: required from here - 1155 | if (!open(outSeqsLeft, toCString(options.outFileNameLeft))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_splicing.cpp:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -286349,6 +286370,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -286661,6 +286689,14 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_splicing.cpp:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/15/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 117 | : data_container(_toPointer(container_)), @@ -288381,14 +288417,8 @@ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/mason_tests.dir/link.d CMakeFiles/mason_tests.dir/mason_tests.cpp.o -o ../../bin/mason_tests -lrt -lz -lbz2 libmason_sim.a -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target mason_tests -make -f apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 98%] Building CXX object apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o -MF CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o.d -o CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_plot_thumbnails.cpp +[ 98%] Building CXX object apps/micro_razers/CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.0.11\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/micro_razers/CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -MF CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o.d -o CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/param_tabs.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -289197,6 +289227,14 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +make -f apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 98%] Building CXX object apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o -MF CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o.d -o CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_plot_thumbnails.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -290079,34 +290117,34 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/../razers/paramChooser.h:992:51, + inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/../razers/paramChooser.h:1285:26: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] 255 | throw BadLexicalCast(target, source); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here 72 | BadLexicalCast(TTarget const & target, TSource const & source) : | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] 255 | throw BadLexicalCast(target, source); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here 72 | BadLexicalCast(TTarget const & target, TSource const & source) : | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/../razers/paramChooser.h:992:51, - inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/../razers/paramChooser.h:1285:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] 255 | throw BadLexicalCast(target, source); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here 72 | BadLexicalCast(TTarget const & target, TSource const & source) : | ^~~~~~~~~~~~~~ @@ -290364,9 +290402,12 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 98%] Linking CXX executable ../../bin/micro_razers +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers && /usr/bin/cmake -E cmake_link_script CMakeFiles/micro_razers.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/micro_razers.dir/link.d CMakeFiles/micro_razers.dir/micro_razers.cpp.o CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -o ../../bin/micro_razers -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 98%] Built target micro_razers [ 98%] Building CXX object apps/ngs_roi/CMakeFiles/bam2roi.dir/roi_builder.cpp.o -[ 98%] Building CXX object apps/micro_razers/CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.0.11\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/micro_razers/CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -MF CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o.d -o CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/param_tabs.cpp cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/ngs_roi/CMakeFiles/bam2roi.dir/roi_builder.cpp.o -MF CMakeFiles/bam2roi.dir/roi_builder.cpp.o.d -o CMakeFiles/bam2roi.dir/roi_builder.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_builder.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, @@ -290553,8 +290594,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 98%] Linking CXX executable ../../bin/micro_razers -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers && /usr/bin/cmake -E cmake_link_script CMakeFiles/micro_razers.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:59: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_library.h:88:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 88 | public std::unary_function, bool> @@ -290716,7 +290755,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/micro_razers.dir/link.d CMakeFiles/micro_razers.dir/micro_razers.cpp.o CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -o ../../bin/micro_razers -lrt -lz -lbz2 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function @@ -290736,7 +290774,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ @@ -290768,10 +290805,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 98%] Built target micro_razers -make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function @@ -290815,9 +290848,6 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { @@ -290837,7 +290867,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 98%] Building CXX object apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { @@ -290845,7 +290874,6 @@ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o -MF CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o.d -o CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_feature_projection.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ @@ -290952,6 +290980,14 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 98%] Building CXX object apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o -MF CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o.d -o CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_feature_projection.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -291494,6 +291530,9 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +[ 98%] Linking CXX static library libpair_align_lib.a +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/cmake -P CMakeFiles/pair_align_lib.dir/cmake_clean_target.cmake +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/pair_align_lib.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::_readBedRecordNoData(BedRecord >&, TForwardIter&, CharString&) [with TForwardIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/read_bed.h:113:43, @@ -291555,9 +291594,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 98%] Linking CXX static library libpair_align_lib.a -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/cmake -P CMakeFiles/pair_align_lib.dir/cmake_clean_target.cmake -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/pair_align_lib.dir/link.txt --verbose=1 In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::_readBedRecordNoData(BedRecord >&, TForwardIter&, CharString&) [with TForwardIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/read_bed.h:113:43, inlined from 'void seqan::_readBedRecordNoData(BedRecord >&, TForwardIter&, CharString&) [with TForwardIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/read_bed.h:135:25, @@ -291600,18 +291636,6 @@ | ^~~~~~ [100%] Building CXX object apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o -MF CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o.d -o CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_spliced.cpp -/usr/bin/ar qc libpair_align_lib.a CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0100.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1101.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1111.dir/pair_align_global.cpp.o -/usr/bin/ranlib libpair_align_lib.a -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[100%] Built target pair_align_lib -make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_align.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/CMakeFiles/pair_align.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_align.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[100%] Building CXX object apps/pair_align/CMakeFiles/pair_align.dir/pair_align.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/CMakeFiles/pair_align.dir/pair_align.cpp.o -MF CMakeFiles/pair_align.dir/pair_align.cpp.o.d -o CMakeFiles/pair_align.dir/pair_align.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/pair_align.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io.h:45, @@ -291867,10 +291891,14 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +[100%] Building CXX object apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o -MF CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o.d -o CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/pair_align.cpp:16: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.cpp:36: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -291878,13 +291906,9 @@ from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:40: + from /usr/include/c++/15/istream:42, + from /usr/include/c++/15/fstream:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.h:38: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -291955,11 +291979,7 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function | ^~~~~~~~~~~~~~ @@ -291967,7 +291987,12 @@ 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/roi_io/roi_io_context.h:40, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/roi_io.h:54, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.h:43: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 325 | public std::unary_function, bool> | ^~~~~~~~~~~~~~ @@ -291995,16 +292020,14 @@ 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 221 | struct QualityExtractor : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function | ^~~~~~~~~~~~~~~ @@ -292066,7 +292089,7 @@ 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ @@ -292125,14 +292148,27 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -[100%] Building CXX object apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o -MF CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o.d -o CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.cpp +[100%] Linking CXX executable ../../bin/roi_feature_projection +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/cmake -E cmake_link_script CMakeFiles/roi_feature_projection.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/roi_feature_projection.dir/link.d CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o -o ../../bin/roi_feature_projection -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[100%] Built target roi_feature_projection +/usr/bin/ar qc libpair_align_lib.a CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0100.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1101.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1111.dir/pair_align_global.cpp.o +/usr/bin/ranlib libpair_align_lib.a +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[100%] Built target pair_align_lib +make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_align.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/CMakeFiles/pair_align.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_align.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[100%] Building CXX object apps/pair_align/CMakeFiles/pair_align.dir/pair_align.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/CMakeFiles/pair_align.dir/pair_align.cpp.o -MF CMakeFiles/pair_align.dir/pair_align.cpp.o.d -o CMakeFiles/pair_align.dir/pair_align.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/pair_align.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.cpp:36: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/pair_align.cpp:16: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -292140,9 +292176,13 @@ from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/istream:42, - from /usr/include/c++/15/fstream:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.h:38: + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:40: /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -292213,7 +292253,11 @@ /usr/include/c++/15/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function | ^~~~~~~~~~~~~~ @@ -292221,12 +292265,7 @@ 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/roi_io/roi_io_context.h:40, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/roi_io.h:54, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.h:43: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 325 | public std::unary_function, bool> | ^~~~~~~~~~~~~~ @@ -292254,14 +292293,16 @@ 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 221 | struct QualityExtractor : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function | ^~~~~~~~~~~~~~~ @@ -292323,7 +292364,7 @@ 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ @@ -292382,11 +292423,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -[100%] Linking CXX executable ../../bin/roi_feature_projection -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/cmake -E cmake_link_script CMakeFiles/roi_feature_projection.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/roi_feature_projection.dir/link.d CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o -o ../../bin/roi_feature_projection -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[100%] Built target roi_feature_projection [100%] Linking CXX executable ../../bin/pair_align cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align && /usr/bin/cmake -E cmake_link_script CMakeFiles/pair_align.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/pair_align.dir/link.d CMakeFiles/pair_align.dir/pair_align.cpp.o -o ../../bin/pair_align lib/libpair_align_lib.a -lrt -lz -lbz2 @@ -292402,3873 +292438,3943 @@ # cd manual && make html make[1]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg' dh_auto_build -Nseqan-apps - cd obj-x86_64-linux-gnu && make -j42 INSTALL="install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j40 INSTALL="install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/seqan2-2.4.0+dfsg -B/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/seqan_library.dir/build.make CMakeFiles/seqan_library.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles/seqan_library.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f apps/mason2/CMakeFiles/mason_sim.dir/build.make apps/mason2/CMakeFiles/mason_sim.dir/depend +make -f CMakeFiles/seqan_library.dir/build.make CMakeFiles/seqan_library.dir/build make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/depend make -f apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles/seqan_library.dir/DependInfo.cmake "--color=" make -f apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_local.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'CMakeFiles/seqan_library.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/DependInfo.cmake "--color=" +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/DependInfo.cmake "--color=" -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/DependInfo.cmake "--color=" -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_local.dir/DependInfo.cmake "--color=" -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/depend -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_local.dir/DependInfo.cmake "--color=" +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/DependInfo.cmake "--color=" -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/DependInfo.cmake "--color=" -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/depend -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/depend -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/DependInfo.cmake "--color=" +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/DependInfo.cmake "--color=" +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/DependInfo.cmake "--color=" -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/DependInfo.cmake "--color=" -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/DependInfo.cmake "--color=" -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/DependInfo.cmake "--color=" -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/DependInfo.cmake "--color=" -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/depend -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/DependInfo.cmake "--color=" -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/compiler_depend.internal". -Dependencies file 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"/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/compiler_depend.internal". 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Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_local.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/compiler_depend.internal". Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/compiler_depend.internal". Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/genomic_variants.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/compiler_depend.internal". Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/compiler_depend.internal". -make -f CMakeFiles/seqan_library.dir/build.make CMakeFiles/seqan_library.dir/build -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/compiler_depend.internal". Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'CMakeFiles/seqan_library.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target pair_align_global_1111 +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/compiler_depend.internal". Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/mason_options.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/compiler_depend.internal". +[ 0%] Built target seqan_library +Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/methylation_levels.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". +make -f tests/align/CMakeFiles/test_align.dir/build.make tests/align/CMakeFiles/test_align.dir/depend +make -f tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/depend +make -f tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/depend +make -f tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/depend +make -f tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/depend +Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/simulate_454.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". +make -f tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/depend +make -f tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg 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tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/DependInfo.cmake "--color=" +Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/simulate_base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/DependInfo.cmake "--color=" +make -f tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/depend +make -f tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/DependInfo.cmake "--color=" +make -f tests/align_extend/CMakeFiles/test_align_extend.dir/build.make tests/align_extend/CMakeFiles/test_align_extend.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/DependInfo.cmake "--color=" +Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/simulate_genome.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/DependInfo.cmake "--color=" +make -f tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/DependInfo.cmake "--color=" +make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/depend +make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_extend /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend/CMakeFiles/test_align_extend.dir/DependInfo.cmake "--color=" +make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/depend +Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". +make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/depend +make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/DependInfo.cmake "--color=" +Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel 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apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build -Consolidate compiler generated dependencies of target pair_align_local make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build -Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/simulate_base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build'. +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/mason2/CMakeFiles/mason_sim.dir/build.make apps/mason2/CMakeFiles/mason_sim.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build'. +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 0%] Built target seqan_library +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build'. +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build +make -f tests/align/CMakeFiles/test_align.dir/build.make tests/align/CMakeFiles/test_align.dir/build +make -f tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/build +make -f tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build'. +make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target pair_align_global_1110 -make -f tests/align/CMakeFiles/test_align.dir/build.make tests/align/CMakeFiles/test_align.dir/depend +make -f tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build'. +make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/depend +make -f tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build'. +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build'. +make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". +make -f tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/build +make -f tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build'. +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/depend +make -f tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/build +make -f tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/build +make -f tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align.dir/DependInfo.cmake "--color=" -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build -Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". -make -f tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/depend +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/align_extend/CMakeFiles/test_align_extend.dir/build.make tests/align_extend/CMakeFiles/test_align_extend.dir/build +make -f tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/DependInfo.cmake "--color=" -make -f tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/depend +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/DependInfo.cmake "--color=" -make -f tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/depend -make -f tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/depend -make -f tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/depend +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build'. +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 0%] Built target pair_align_global_1111 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/DependInfo.cmake "--color=" -[ 0%] Built target pair_align_global_0001 -[ 0%] Built target pair_align_lcs -[ 0%] Built target pair_align_global_0100 -make -f tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/depend +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/DependInfo.cmake "--color=" -make -f tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/depend -[ 0%] Built target pair_align_global_0101 -[ 0%] Built target pair_align_global_0000 -[ 0%] Built target pair_align_global_0011 -make -f tests/align_extend/CMakeFiles/test_align_extend.dir/build.make tests/align_extend/CMakeFiles/test_align_extend.dir/depend -make -f tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/depend -[ 0%] Built target pair_align_global_0010 -make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/depend +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/DependInfo.cmake "--color=" -[ 0%] Built target pair_align_global_1001 -[ 0%] Built target pair_align_global_0110 +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_extend /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend/CMakeFiles/test_align_extend.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target pair_align_global_0111 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_sim.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/depend -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build'. +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/depend -[ 1%] Built target pair_align_global_1101 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/DependInfo.cmake "--color=" -make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/depend -make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/depend -Dependencies file "tests/align/CMakeFiles/test_align.dir/test_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/DependInfo.cmake "--color=" -make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/depend +make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/DependInfo.cmake "--color=" -Dependencies file "tests/align/CMakeFiles/test_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/align_extend/CMakeFiles/test_align_extend.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 0%] Built target pair_align_lcs +[ 0%] Built target pair_align_global_1110 +[ 0%] Built target pair_align_local +[ 0%] Built target pair_align_global_1111 +[ 0%] Built target pair_align_global_0011 +[ 0%] Built target pair_align_global_0100 +[ 0%] Built target pair_align_global_1000 +[ 0%] Built target pair_align_global_0000 +[ 0%] Built target test_align_parallel_algorithm +[ 0%] Built target pair_align_global_1001 +[ 0%] Built target test_align_parallel_algorithm_sse4 make -f tests/align_profile/CMakeFiles/test_align_profile.dir/build.make tests/align_profile/CMakeFiles/test_align_profile.dir/depend -[ 1%] Built target pair_align_global_1000 +Consolidate compiler generated dependencies of target test_align_simd_global_variable_length_sse4 +[ 1%] Built target pair_align_global_0110 +[ 1%] Built target test_align_simd_local_equal_length_sse4 +[ 1%] Built target test_align_simd_global_equal_length_avx2 +[ 1%] Built target test_align_simd_local_variable_length_avx2 +[ 3%] Built target pair_align_global_0111 +[ 1%] Built target test_align_simd_global_equal_length +[ 1%] Built target pair_align_global_0101 +[ 1%] Built target test_align_simd_local_variable_length +[ 1%] Built target pair_align_global_1101 +[ 1%] Built target test_align_parallel_interface +[ 1%] Built target pair_align_global_0010 +[ 1%] Built target pair_align_global_1011 +[ 1%] Built target test_align_simd_global_variable_length +[ 1%] Built target test_align_parallel_interface_sse4 +[ 1%] Built target test_align +[ 1%] Built target test_align_parallel_data_structures +[ 1%] Built target pair_align_global_0001 +[ 1%] Built target test_align_simd_global_equal_length_sse4 +[ 1%] Built target test_align_simd_local_equal_length_avx2 +[ 3%] Built target test_align_simd_local_equal_length +[ 1%] Built target pair_align_global_1100 +[ 3%] Built target mason_sim +[ 1%] Built target test_align_parallel_interface_avx2 +[ 1%] Built target test_align_extend +[ 1%] Built target pair_align_global_1010 +[ 1%] Built target test_align_simd_global_variable_length_avx2 make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.dir/depend +Consolidate compiler generated dependencies of target test_align_parallel_algorithm_avx2 make -f tests/alignment_free/CMakeFiles/test_alignment_free.dir/build.make tests/alignment_free/CMakeFiles/test_alignment_free.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/DependInfo.cmake "--color=" +[ 1%] Built target test_align_simd_local_variable_length_sse4 make -f tests/arg_parse/CMakeFiles/test_arg_parse.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse.dir/depend -[ 1%] Built target pair_align_global_1011 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_profile /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile/CMakeFiles/test_align_profile.dir/DependInfo.cmake "--color=" make -f tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_split /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split/CMakeFiles/test_align_split.dir/DependInfo.cmake "--color=" make -f tests/bam_io/CMakeFiles/test_bam_io.dir/build.make tests/bam_io/CMakeFiles/test_bam_io.dir/depend -[ 1%] Built target pair_align_local -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/alignment_free /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free/CMakeFiles/test_alignment_free.dir/DependInfo.cmake "--color=" make -f tests/basic/CMakeFiles/test_basic_exception.dir/build.make tests/basic/CMakeFiles/test_basic_exception.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target pair_align_global_1100 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/build +make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build make -f tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build.make tests/basic/CMakeFiles/test_basic_metaprogramming.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/DependInfo.cmake "--color=" make -f tests/basic/CMakeFiles/test_basic_fundamental.dir/build.make tests/basic/CMakeFiles/test_basic_fundamental.dir/depend -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/test_align_simd_global_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/test_align_simd_global_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/bam_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io/CMakeFiles/test_bam_io.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/DependInfo.cmake "--color=" make -f tests/basic/CMakeFiles/test_basic_concept.dir/build.make tests/basic/CMakeFiles/test_basic_concept.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_exception.dir/DependInfo.cmake "--color=" -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/test_align_simd_global_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/compiler_depend.internal". +make -f tests/basic/CMakeFiles/test_basic_alphabet.dir/build.make tests/basic/CMakeFiles/test_basic_alphabet.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/alignment_free /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free/CMakeFiles/test_alignment_free.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/bam_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io/CMakeFiles/test_bam_io.dir/DependInfo.cmake "--color=" +make -f tests/basic/CMakeFiles/test_basic_aggregate.dir/build.make tests/basic/CMakeFiles/test_basic_aggregate.dir/depend +make -f tests/basic/CMakeFiles/test_basic_allocator.dir/build.make tests/basic/CMakeFiles/test_basic_allocator.dir/depend +make -f tests/basic/CMakeFiles/test_basic_parallelism.dir/build.make tests/basic/CMakeFiles/test_basic_parallelism.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_metaprogramming.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target test_align +make -f tests/basic/CMakeFiles/test_basic_math.dir/build.make tests/basic/CMakeFiles/test_basic_math.dir/depend +make -f tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build.make tests/basic/CMakeFiles/test_basic_smart_pointer.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_fundamental.dir/DependInfo.cmake "--color=" -make -f tests/basic/CMakeFiles/test_basic_alphabet.dir/build.make tests/basic/CMakeFiles/test_basic_alphabet.dir/depend -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/test_align_simd_local_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/compiler_depend.internal". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_concept.dir/DependInfo.cmake "--color=" -make -f tests/basic/CMakeFiles/test_basic_aggregate.dir/build.make tests/basic/CMakeFiles/test_basic_aggregate.dir/depend -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/test_align_simd_local_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/test_align_simd_global_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/compiler_depend.internal". -make -f tests/basic/CMakeFiles/test_basic_allocator.dir/build.make tests/basic/CMakeFiles/test_basic_allocator.dir/depend -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/test_align_simd_local_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/compiler_depend.internal". -[ 1%] Built target pair_align_global_1010 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/compiler_depend.internal". +make -f tests/basic/CMakeFiles/test_basic_container.dir/build.make tests/basic/CMakeFiles/test_basic_container.dir/depend +make -f tests/basic/CMakeFiles/test_basic_proxy.dir/build.make tests/basic/CMakeFiles/test_basic_proxy.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_alphabet.dir/DependInfo.cmake "--color=" -make -f tests/align/CMakeFiles/test_align.dir/build.make tests/align/CMakeFiles/test_align.dir/build -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/test_align_simd_global_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/test_align_simd_global_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/basic/CMakeFiles/test_basic_iterator.dir/build.make tests/basic/CMakeFiles/test_basic_iterator.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_aggregate.dir/DependInfo.cmake "--color=" -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/compiler_depend.internal". -make -f tests/basic/CMakeFiles/test_basic_parallelism.dir/build.make tests/basic/CMakeFiles/test_basic_parallelism.dir/depend -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_allocator.dir/DependInfo.cmake "--color=" -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_parallelism.dir/DependInfo.cmake "--color=" -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/test_align_simd_local_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/compiler_depend.internal". -make -f tests/basic/CMakeFiles/test_basic_math.dir/build.make tests/basic/CMakeFiles/test_basic_math.dir/depend -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/test_align_simd_local_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/compiler_depend.internal". -Dependencies file "tests/align_extend/CMakeFiles/test_align_extend.dir/test_align_extend.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend/CMakeFiles/test_align_extend.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/test_align_simd_local_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/compiler_depend.internal". -[ 1%] Built target pair_align_global_1110 -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/test_align_parallel_interface.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/test_align_parallel_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_align_simd_global_variable_length -Consolidate compiler generated dependencies of target test_align_simd_global_equal_length -Dependencies file "tests/align_extend/CMakeFiles/test_align_extend.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend/CMakeFiles/test_align_extend.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/test_align_parallel_data_structures.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/compiler_depend.internal". +make -f tests/bed_io/CMakeFiles/test_bed_io.dir/build.make tests/bed_io/CMakeFiles/test_bed_io.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_math.dir/DependInfo.cmake "--color=" -make -f tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build.make tests/basic/CMakeFiles/test_basic_smart_pointer.dir/depend -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/test_align_parallel_interface.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/test_align_parallel_interface.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_align_simd_local_variable_length -make -f tests/basic/CMakeFiles/test_basic_container.dir/build.make tests/basic/CMakeFiles/test_basic_container.dir/depend -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_align_simd_local_variable_length_sse4 -Dependencies file "tests/align_profile/CMakeFiles/test_align_profile.dir/test_align_profile.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile/CMakeFiles/test_align_profile.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_align_simd_global_equal_length_avx2 -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/build +make -f tests/blast/CMakeFiles/test_blast.dir/build.make tests/blast/CMakeFiles/test_blast.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/test_align_parallel_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_align_simd_global_equal_length_sse4 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_math.dir/DependInfo.cmake "--color=" +make -f tests/consensus/CMakeFiles/test_consensus.dir/build.make tests/consensus/CMakeFiles/test_consensus.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_proxy.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_container.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_smart_pointer.dir/DependInfo.cmake "--color=" -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/compiler_depend.internal". -make -f tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_align_simd_global_variable_length_avx2 -Dependencies file "tests/arg_parse/CMakeFiles/test_arg_parse.dir/test_arg_parse.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse.dir/compiler_depend.internal". -make -f tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_align_simd_global_variable_length_sse4 +make -f tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build.make tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/depend +make -f tests/find/CMakeFiles/test_find.dir/build.make tests/find/CMakeFiles/test_find.dir/depend +make -f tests/gff_io/CMakeFiles/test_gff_io.dir/build.make tests/gff_io/CMakeFiles/test_gff_io.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_iterator.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/bed_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io/CMakeFiles/test_bed_io.dir/DependInfo.cmake "--color=" +make -f tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build.make tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/depend +make -f tests/graph_align/CMakeFiles/test_graph_align.dir/build.make tests/graph_align/CMakeFiles/test_graph_align.dir/depend +make -f tests/graph_msa/CMakeFiles/test_graph_msa.dir/build.make tests/graph_msa/CMakeFiles/test_graph_msa.dir/depend +make -f tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/depend +Dependencies file "tests/align_split/CMakeFiles/test_align_split.dir/test_align_split.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split/CMakeFiles/test_align_split.dir/compiler_depend.internal". +make -f tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_derived.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/blast /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast/CMakeFiles/test_blast.dir/DependInfo.cmake "--color=" +Dependencies file "tests/align_profile/CMakeFiles/test_align_profile.dir/test_align_profile.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile/CMakeFiles/test_align_profile.dir/compiler_depend.internal". +make -f tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/consensus /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus/CMakeFiles/test_consensus.dir/DependInfo.cmake "--color=" +make -f tests/graph_types/CMakeFiles/test_graph_types_types.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_types.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/gff_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/gff_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/gff_io/CMakeFiles/test_gff_io.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/find /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find/CMakeFiles/test_find.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_algorithms /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_msa /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa/CMakeFiles/test_graph_msa.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align/CMakeFiles/test_graph_align.dir/DependInfo.cmake "--color=" +Dependencies file "tests/align_split/CMakeFiles/test_align_split.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split/CMakeFiles/test_align_split.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/DependInfo.cmake "--color=" Dependencies file "tests/align_profile/CMakeFiles/test_align_profile.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile/CMakeFiles/test_align_profile.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/test_align_parallel_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_utils.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_container.dir/DependInfo.cmake "--color=" -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/consensus_v2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/DependInfo.cmake "--color=" +make -f tests/index/CMakeFiles/test_index_creation.dir/build.make tests/index/CMakeFiles/test_index_creation.dir/depend +make -f tests/index/CMakeFiles/test_index_crosscompare_char.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_derived.dir/DependInfo.cmake "--color=" +make -f tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/depend +make -f tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna.dir/depend +Dependencies file "tests/arg_parse/CMakeFiles/test_arg_parse.dir/test_arg_parse.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse.dir/compiler_depend.internal". +Dependencies file "tests/basic/CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_exception.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/depend Dependencies file "tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_utils.dir/DependInfo.cmake "--color=" +Dependencies file "tests/bam_io/CMakeFiles/test_bam_io.dir/test_bam_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io/CMakeFiles/test_bam_io.dir/compiler_depend.internal". Dependencies file "tests/arg_parse/CMakeFiles/test_arg_parse.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse.dir/compiler_depend.internal". Dependencies file "tests/alignment_free/CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free/CMakeFiles/test_alignment_free.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_align_simd_local_equal_length_sse4 -Dependencies file "tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/basic/CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_exception.dir/compiler_depend.internal". -Dependencies file "tests/bam_io/CMakeFiles/test_bam_io.dir/test_bam_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io/CMakeFiles/test_bam_io.dir/compiler_depend.internal". -Dependencies file "tests/align_split/CMakeFiles/test_align_split.dir/test_align_split.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split/CMakeFiles/test_align_split.dir/compiler_depend.internal". -Dependencies file "tests/basic/CMakeFiles/test_basic_metaprogramming.dir/test_basic_metaprogramming.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_metaprogramming.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_align_simd_local_equal_length_avx2 -make -f tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/build -Dependencies file "tests/alignment_free/CMakeFiles/test_alignment_free.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free/CMakeFiles/test_alignment_free.dir/compiler_depend.internal". -Dependencies file "tests/basic/CMakeFiles/test_basic_exception.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_exception.dir/compiler_depend.internal". -Dependencies file "tests/basic/CMakeFiles/test_basic_metaprogramming.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_metaprogramming.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_align_parallel_algorithm Dependencies file "tests/basic/CMakeFiles/test_basic_fundamental.dir/test_basic_fundamental.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_fundamental.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_align_parallel_interface_avx2 Dependencies file "tests/basic/CMakeFiles/test_basic_concept.dir/test_basic_concept.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_concept.dir/compiler_depend.internal". -Dependencies file "tests/bam_io/CMakeFiles/test_bam_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io/CMakeFiles/test_bam_io.dir/compiler_depend.internal". -Dependencies file "tests/basic/CMakeFiles/test_basic_fundamental.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_fundamental.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/align_split/CMakeFiles/test_align_split.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split/CMakeFiles/test_align_split.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_align_parallel_data_structures -Consolidate compiler generated dependencies of target test_align_simd_local_equal_length -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_align_extend -Dependencies file "tests/basic/CMakeFiles/test_basic_concept.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_concept.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_align_parallel_interface_sse4 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_arg_parse -make -f tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/build -Consolidate compiler generated dependencies of target test_align_parallel_interface +Dependencies file "tests/basic/CMakeFiles/test_basic_exception.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_exception.dir/compiler_depend.internal". +Dependencies file "tests/basic/CMakeFiles/test_basic_metaprogramming.dir/test_basic_metaprogramming.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_metaprogramming.dir/compiler_depend.internal". +[ 3%] Built target test_align_simd_global_variable_length_sse4 +[ 4%] Built target test_align_parallel_algorithm_avx2 +make -f tests/index/CMakeFiles/test_index_qgram.dir/build.make tests/index/CMakeFiles/test_index_qgram.dir/depend +make -f tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build.make tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/depend +Dependencies file "tests/bed_io/CMakeFiles/test_bed_io.dir/test_bed_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io/CMakeFiles/test_bed_io.dir/compiler_depend.internal". Dependencies file "tests/basic/CMakeFiles/test_basic_aggregate.dir/test_basic_aggregate.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_aggregate.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_align_simd_local_variable_length_avx2 -Consolidate compiler generated dependencies of target test_arg_parse_version_check -make -f tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/build +Dependencies file "tests/basic/CMakeFiles/test_basic_iterator.dir/test_basic_iterator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_iterator.dir/compiler_depend.internal". +Dependencies file "tests/basic/CMakeFiles/test_basic_parallelism.dir/test_basic_parallelism.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_parallelism.dir/compiler_depend.internal". +Dependencies file "tests/basic/CMakeFiles/test_basic_alphabet.dir/test_basic_alphabet.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_alphabet.dir/compiler_depend.internal". +Dependencies file "tests/basic/CMakeFiles/test_basic_math.dir/test_basic_math.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_math.dir/compiler_depend.internal". +Dependencies file "tests/basic/CMakeFiles/test_basic_container.dir/test_basic_container.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_container.dir/compiler_depend.internal". +Dependencies file "tests/basic/CMakeFiles/test_basic_proxy.dir/test_basic_proxy.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_proxy.dir/compiler_depend.internal". +Dependencies file "tests/basic/CMakeFiles/test_basic_metaprogramming.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_metaprogramming.dir/compiler_depend.internal". Dependencies file "tests/basic/CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_allocator.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_basic_metaprogramming -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_creation.dir/DependInfo.cmake "--color=" +Dependencies file "tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/DependInfo.cmake "--color=" +Dependencies file "tests/basic/CMakeFiles/test_basic_smart_pointer.dir/test_basic_smart_pointer.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_smart_pointer.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char.dir/DependInfo.cmake "--color=" +Dependencies file "tests/basic/CMakeFiles/test_basic_fundamental.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_fundamental.dir/compiler_depend.internal". +Dependencies file "tests/basic/CMakeFiles/test_basic_concept.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_concept.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types 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Dependencies file "tests/basic/CMakeFiles/test_basic_allocator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_allocator.dir/compiler_depend.internal". -make -f tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/build -Consolidate compiler generated dependencies of target test_align_parallel_algorithm_sse4 -Dependencies file "tests/basic/CMakeFiles/test_basic_parallelism.dir/test_basic_parallelism.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_parallelism.dir/compiler_depend.internal". -make -f tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/basic/CMakeFiles/test_basic_smart_pointer.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_smart_pointer.dir/compiler_depend.internal". +Dependencies file "tests/alignment_free/CMakeFiles/test_alignment_free.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free/CMakeFiles/test_alignment_free.dir/compiler_depend.internal". +Dependencies file "tests/find/CMakeFiles/test_find.dir/test_find.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find/CMakeFiles/test_find.dir/compiler_depend.internal". +Dependencies file "tests/consensus/CMakeFiles/test_consensus.dir/test_consensus.cpp.o.d" is newer than depends file 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directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align_extend/CMakeFiles/test_align_extend.dir/build.make tests/align_extend/CMakeFiles/test_align_extend.dir/build -Dependencies file "tests/basic/CMakeFiles/test_basic_parallelism.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_parallelism.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index 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"/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/compiler_depend.internal". +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_utils.dir/test_graph_types_utils.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_utils.dir/compiler_depend.internal". +Dependencies file "tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/test_consensus_v2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/compiler_depend.internal". +Dependencies file "tests/graph_msa/CMakeFiles/test_graph_msa.dir/test_graph_msa.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa/CMakeFiles/test_graph_msa.dir/compiler_depend.internal". +Dependencies file "tests/blast/CMakeFiles/test_blast.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast/CMakeFiles/test_blast.dir/compiler_depend.internal". +Dependencies file "tests/graph_align/CMakeFiles/test_graph_align.dir/test_graph_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align/CMakeFiles/test_graph_align.dir/compiler_depend.internal". +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/compiler_depend.internal". +Dependencies file "tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/compiler_depend.internal". +Dependencies file "tests/graph_msa/CMakeFiles/test_graph_msa.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa/CMakeFiles/test_graph_msa.dir/compiler_depend.internal". +Dependencies file "tests/find/CMakeFiles/test_find.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find/CMakeFiles/test_find.dir/compiler_depend.internal". +Dependencies file "tests/graph_align/CMakeFiles/test_graph_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align/CMakeFiles/test_graph_align.dir/compiler_depend.internal". +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_derived.dir/test_graph_types_derived.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_derived.dir/compiler_depend.internal". +Dependencies file "tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/compiler_depend.internal". +Dependencies file "tests/gff_io/CMakeFiles/test_gff_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/gff_io/CMakeFiles/test_gff_io.dir/compiler_depend.internal". +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_utils.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_utils.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_basic_aggregate +Consolidate compiler generated dependencies of target test_basic_exception +Consolidate compiler generated dependencies of target test_basic_parallelism +Consolidate compiler generated dependencies of target test_basic_concept Consolidate compiler generated dependencies of target test_basic_fundamental +Consolidate compiler generated dependencies of target test_basic_metaprogramming +Consolidate compiler generated dependencies of target test_basic_alphabet +Consolidate compiler generated dependencies of target test_bed_io Consolidate compiler generated dependencies of target test_align_profile -make -f tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_align_split +Consolidate compiler generated dependencies of target test_arg_parse +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/compiler_depend.internal". +Dependencies file "tests/consensus/CMakeFiles/test_consensus.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus/CMakeFiles/test_consensus.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/basic/CMakeFiles/test_basic_aggregate.dir/build.make tests/basic/CMakeFiles/test_basic_aggregate.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/arg_parse/CMakeFiles/test_arg_parse.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/build -make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build -Consolidate compiler generated dependencies of target test_basic_concept make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_basic_parallelism +make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.dir/build +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_derived.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_derived.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/build -Consolidate compiler generated dependencies of target test_basic_allocator -Consolidate compiler generated dependencies of target test_alignment_free -make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/build +Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/test_index_crosscompare_char_dfi.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/compiler_depend.internal". make -f tests/align_profile/CMakeFiles/test_align_profile.dir/build.make tests/align_profile/CMakeFiles/test_align_profile.dir/build +Dependencies file "tests/index/CMakeFiles/test_index_creation.dir/test_index_creation.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_creation.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/basic/CMakeFiles/test_basic_exception.dir/build.make tests/basic/CMakeFiles/test_basic_exception.dir/build +make -f tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build.make tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build +Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_dna.dir/test_index_crosscompare_dna.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna.dir/compiler_depend.internal". +make -f tests/basic/CMakeFiles/test_basic_concept.dir/build.make tests/basic/CMakeFiles/test_basic_concept.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_align_split -Dependencies file "tests/basic/CMakeFiles/test_basic_math.dir/test_basic_math.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_math.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_basic_aggregate -Consolidate compiler generated dependencies of target test_bam_io -Dependencies file "tests/basic/CMakeFiles/test_basic_math.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_math.dir/compiler_depend.internal". +make -f tests/basic/CMakeFiles/test_basic_fundamental.dir/build.make tests/basic/CMakeFiles/test_basic_fundamental.dir/build +make -f tests/basic/CMakeFiles/test_basic_alphabet.dir/build.make tests/basic/CMakeFiles/test_basic_alphabet.dir/build +Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_dna.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna.dir/compiler_depend.internal". +make -f tests/basic/CMakeFiles/test_basic_parallelism.dir/build.make tests/basic/CMakeFiles/test_basic_parallelism.dir/build +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_types.dir/test_graph_types_types.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_types.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_char.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char.dir/compiler_depend.internal". +make -f tests/bed_io/CMakeFiles/test_bed_io.dir/build.make tests/bed_io/CMakeFiles/test_bed_io.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/arg_parse/CMakeFiles/test_arg_parse.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse.dir/build -Consolidate compiler generated dependencies of target test_align_parallel_algorithm_avx2 -make -f tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build -Dependencies file "tests/basic/CMakeFiles/test_basic_alphabet.dir/test_basic_alphabet.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_alphabet.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_aggregate.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/build'. +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build -make -f tests/basic/CMakeFiles/test_basic_exception.dir/build.make tests/basic/CMakeFiles/test_basic_exception.dir/build +Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/test_index_crosscompare_dna_dfi.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_creation.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_creation.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_exception.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/basic/CMakeFiles/test_basic_alphabet.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_alphabet.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target mason_sim +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/arg_parse/CMakeFiles/test_arg_parse.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_types.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_types.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/build'. +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_concept.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build'. +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_parallelism.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/build'. +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_fundamental.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/basic/CMakeFiles/test_basic_container.dir/test_basic_container.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_container.dir/compiler_depend.internal". -make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/build'. -[ 1%] Built target test_align +make[3]: Nothing to be done for 'tests/align_split/CMakeFiles/test_align_split.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build'. +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_alphabet.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build.make tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build -Dependencies file "tests/basic/CMakeFiles/test_basic_container.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_container.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/test_index_sa_bwtwalk.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_qgram.dir/test_index_qgram.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_qgram.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_extend/CMakeFiles/test_align_extend.dir/build'. +make[3]: Nothing to be done for 'tests/align_profile/CMakeFiles/test_align_profile.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_qgram.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_qgram.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/build'. +make[3]: Nothing to be done for 'tests/bed_io/CMakeFiles/test_bed_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 4%] Built target test_basic_metaprogramming +[ 4%] Built target test_basic_exception +[ 4%] Built target test_basic_parallelism +make -f tests/index/CMakeFiles/test_index_shapes.dir/build.make tests/index/CMakeFiles/test_index_shapes.dir/depend +[ 4%] Built target test_basic_fundamental +[ 4%] Built target test_basic_concept +[ 4%] Built target test_arg_parse +[ 4%] Built target test_basic_aggregate +make -f tests/index/CMakeFiles/test_index_drawing.dir/build.make tests/index/CMakeFiles/test_index_drawing.dir/depend +[ 5%] Built target test_align_split +make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/depend +[ 5%] Built target test_basic_alphabet +make -f tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build.make tests/index/CMakeFiles/test_index_fm_sparse_string.dir/depend +make -f tests/index/CMakeFiles/test_index_base.dir/build.make tests/index/CMakeFiles/test_index_base.dir/depend +make -f tests/index/CMakeFiles/test_index_fm.dir/build.make tests/index/CMakeFiles/test_index_fm.dir/depend +[ 6%] Built target test_align_profile +make -f tests/index/CMakeFiles/test_index_bifm.dir/build.make tests/index/CMakeFiles/test_index_bifm.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_drawing.dir/DependInfo.cmake "--color=" +make -f tests/index/CMakeFiles/test_index_vstree.dir/build.make tests/index/CMakeFiles/test_index_vstree.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_shapes.dir/DependInfo.cmake "--color=" +make -f tests/index/CMakeFiles/test_index_stree_iterators.dir/build.make tests/index/CMakeFiles/test_index_stree_iterators.dir/depend +make -f tests/index/CMakeFiles/test_index_view.dir/build.make tests/index/CMakeFiles/test_index_view.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_sparse_string.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_base.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_bifm.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_vstree.dir/DependInfo.cmake "--color=" +[ 7%] Built target test_bed_io +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_view.dir/DependInfo.cmake "--color=" +make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_stree_iterators.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_finder.dir/DependInfo.cmake "--color=" +Dependencies file "tests/index/CMakeFiles/test_index_shapes.dir/test_index_shapes.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_shapes.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_drawing.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_fm_sparse_string.dir/test_index_fm_sparse_string.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_sparse_string.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_bifm.dir/test_index_bifm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_bifm.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_base.dir/test_index_base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_base.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_drawing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_drawing.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_fm.dir/test_index_fm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_shapes.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_shapes.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_vstree.dir/test_index_vstree.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_vstree.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_view.dir/test_index_view.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_view.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_stree_iterators.dir/test_index_stree_iterators.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_stree_iterators.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_finder.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_graph_types_types +Consolidate compiler generated dependencies of target test_graph_types_iterators +Consolidate compiler generated dependencies of target test_gff_io +Consolidate compiler generated dependencies of target test_basic_container +Consolidate compiler generated dependencies of target test_graph_algorithms +Consolidate compiler generated dependencies of target test_basic_iterator +Consolidate compiler generated dependencies of target test_index_crosscompare_dna +Consolidate compiler generated dependencies of target test_basic_math +Consolidate compiler generated dependencies of target test_graph_types_derived +Consolidate compiler generated dependencies of target test_graph_msa +Consolidate compiler generated dependencies of target test_graph_align +Consolidate compiler generated dependencies of target test_blast +Consolidate compiler generated dependencies of target test_index_crosscompare_dna_dfi +Consolidate compiler generated dependencies of target test_bam_io +Consolidate compiler generated dependencies of target test_graph_types_property_map +Consolidate compiler generated dependencies of target test_find +Consolidate compiler generated dependencies of target test_arg_parse_version_check +Consolidate compiler generated dependencies of target test_index_qgram +Consolidate compiler generated dependencies of target test_index_crosscompare_char +Consolidate compiler generated dependencies of target test_alignment_free +Consolidate compiler generated dependencies of target test_basic_smart_pointer +Consolidate compiler generated dependencies of target test_index_creation +Consolidate compiler generated dependencies of target test_basic_allocator +Consolidate compiler generated dependencies of target test_consensus_v2 +Consolidate compiler generated dependencies of target test_basic_proxy +Dependencies file "tests/index/CMakeFiles/test_index_vstree.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_vstree.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_finder.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_finder.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/index/CMakeFiles/test_index_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_base.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_fm_sparse_string.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_sparse_string.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_fundamental.dir/build.make tests/basic/CMakeFiles/test_basic_fundamental.dir/build -Consolidate compiler generated dependencies of target test_basic_math -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/build'. +make -f tests/basic/CMakeFiles/test_basic_container.dir/build.make tests/basic/CMakeFiles/test_basic_container.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/bam_io/CMakeFiles/test_bam_io.dir/build.make tests/bam_io/CMakeFiles/test_bam_io.dir/build +Dependencies file "tests/index/CMakeFiles/test_index_bifm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_bifm.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_view.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_view.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_concept.dir/build.make tests/basic/CMakeFiles/test_basic_concept.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/mason2/CMakeFiles/mason_sim.dir/build.make apps/mason2/CMakeFiles/mason_sim.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/alignment_free/CMakeFiles/test_alignment_free.dir/build.make tests/alignment_free/CMakeFiles/test_alignment_free.dir/build -Consolidate compiler generated dependencies of target test_basic_alphabet make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/basic/CMakeFiles/test_basic_smart_pointer.dir/test_basic_smart_pointer.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_smart_pointer.dir/compiler_depend.internal". -make -f tests/basic/CMakeFiles/test_basic_aggregate.dir/build.make tests/basic/CMakeFiles/test_basic_aggregate.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build'. +Dependencies file "tests/index/CMakeFiles/test_index_stree_iterators.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_stree_iterators.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/basic/CMakeFiles/test_basic_smart_pointer.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_smart_pointer.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/arg_parse/CMakeFiles/test_arg_parse.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_profile/CMakeFiles/test_align_profile.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_allocator.dir/build.make tests/basic/CMakeFiles/test_basic_allocator.dir/build -Consolidate compiler generated dependencies of target test_basic_container -make -f tests/basic/CMakeFiles/test_basic_alphabet.dir/build.make tests/basic/CMakeFiles/test_basic_alphabet.dir/build -make -f tests/basic/CMakeFiles/test_basic_parallelism.dir/build.make tests/basic/CMakeFiles/test_basic_parallelism.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_exception.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_math.dir/build.make tests/basic/CMakeFiles/test_basic_math.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_fundamental.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_basic_smart_pointer make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/alignment_free/CMakeFiles/test_alignment_free.dir/build.make tests/alignment_free/CMakeFiles/test_alignment_free.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/index/CMakeFiles/test_index_fm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm.dir/compiler_depend.internal". +make -f tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/bam_io/CMakeFiles/test_bam_io.dir/build.make tests/bam_io/CMakeFiles/test_bam_io.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_container.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/basic/CMakeFiles/test_basic_allocator.dir/build.make tests/basic/CMakeFiles/test_basic_allocator.dir/build +make -f tests/basic/CMakeFiles/test_basic_math.dir/build.make tests/basic/CMakeFiles/test_basic_math.dir/build +make -f tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build.make tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build +make -f tests/basic/CMakeFiles/test_basic_proxy.dir/build.make tests/basic/CMakeFiles/test_basic_proxy.dir/build +make -f tests/basic/CMakeFiles/test_basic_iterator.dir/build.make tests/basic/CMakeFiles/test_basic_iterator.dir/build +make -f tests/blast/CMakeFiles/test_blast.dir/build.make tests/blast/CMakeFiles/test_blast.dir/build +make -f tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build.make tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build +make -f tests/find/CMakeFiles/test_find.dir/build.make tests/find/CMakeFiles/test_find.dir/build +make -f tests/gff_io/CMakeFiles/test_gff_io.dir/build.make tests/gff_io/CMakeFiles/test_gff_io.dir/build +make -f tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build.make tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build +make -f tests/graph_align/CMakeFiles/test_graph_align.dir/build.make tests/graph_align/CMakeFiles/test_graph_align.dir/build +make -f tests/graph_msa/CMakeFiles/test_graph_msa.dir/build.make tests/graph_msa/CMakeFiles/test_graph_msa.dir/build +make -f tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_allocator.dir/build'. make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build'. +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_math.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_concept.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_alphabet.dir/build'. +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_proxy.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_parallelism.dir/build'. +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build +make -f tests/graph_types/CMakeFiles/test_graph_types_types.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_types.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build'. +make[3]: Nothing to be done for 'tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_allocator.dir/build'. +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_iterator.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_creation.dir/build.make tests/index/CMakeFiles/test_index_creation.dir/build +make -f tests/index/CMakeFiles/test_index_crosscompare_char.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char.dir/build +make -f tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_split/CMakeFiles/test_align_split.dir/build'. +make[3]: Nothing to be done for 'tests/alignment_free/CMakeFiles/test_alignment_free.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tests/bam_io/CMakeFiles/test_bam_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_qgram.dir/build.make tests/index/CMakeFiles/test_index_qgram.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_aggregate.dir/build'. +make[3]: Nothing to be done for 'tests/gff_io/CMakeFiles/test_gff_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/alignment_free/CMakeFiles/test_alignment_free.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/blast/CMakeFiles/test_blast.dir/build'. +make[3]: Nothing to be done for 'tests/find/CMakeFiles/test_find.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build.make tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build -make -f tests/basic/CMakeFiles/test_basic_container.dir/build.make tests/basic/CMakeFiles/test_basic_container.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build'. +make[3]: Nothing to be done for 'tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_math.dir/build'. +make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_container.dir/build'. +make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_types.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_sim.dir/build'. +make[3]: Nothing to be done for 'tests/graph_align/CMakeFiles/test_graph_align.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target test_align_simd_global_equal_length -[ 1%] Built target test_align_simd_local_variable_length -[ 1%] Built target test_align_simd_global_variable_length -[ 1%] Built target test_align_simd_global_variable_length_avx2 -[ 1%] Built target test_align_simd_global_equal_length_sse4 -[ 1%] Built target test_align_simd_global_equal_length_avx2 -[ 1%] Built target test_align_simd_local_equal_length_avx2 -[ 1%] Built target test_align_parallel_interface -[ 1%] Built target test_align_simd_local_variable_length_sse4 -[ 1%] Built target test_align_simd_global_variable_length_sse4 -[ 1%] Built target test_align_parallel_data_structures -[ 1%] Built target test_align_extend -[ 1%] Built target test_arg_parse -[ 1%] Built target test_align_parallel_algorithm -[ 1%] Built target test_align_simd_local_variable_length_avx2 -make -f tests/basic/CMakeFiles/test_basic_proxy.dir/build.make tests/basic/CMakeFiles/test_basic_proxy.dir/depend -make -f tests/basic/CMakeFiles/test_basic_iterator.dir/build.make tests/basic/CMakeFiles/test_basic_iterator.dir/depend -[ 1%] Built target test_align_simd_local_equal_length_sse4 -make -f tests/bed_io/CMakeFiles/test_bed_io.dir/build.make tests/bed_io/CMakeFiles/test_bed_io.dir/depend -make -f tests/blast/CMakeFiles/test_blast.dir/build.make tests/blast/CMakeFiles/test_blast.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_proxy.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/graph_msa/CMakeFiles/test_graph_msa.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_iterator.dir/DependInfo.cmake "--color=" -[ 1%] Built target test_align_parallel_interface_sse4 -make -f tests/consensus/CMakeFiles/test_consensus.dir/build.make tests/consensus/CMakeFiles/test_consensus.dir/depend +make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/bed_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io/CMakeFiles/test_bed_io.dir/DependInfo.cmake "--color=" -make -f tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build.make tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/depend -[ 2%] Built target test_align_parallel_algorithm_sse4 -make -f tests/find/CMakeFiles/test_find.dir/build.make tests/find/CMakeFiles/test_find.dir/depend +make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/blast /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast/CMakeFiles/test_blast.dir/DependInfo.cmake "--color=" -[ 2%] Built target test_align_parallel_interface_avx2 +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_crosscompare_char.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/consensus /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus/CMakeFiles/test_consensus.dir/DependInfo.cmake "--color=" -[ 3%] Built target test_basic_metaprogramming -[ 3%] Built target test_align_parallel_algorithm_avx2 -[ 3%] Built target test_basic_exception +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/consensus_v2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/DependInfo.cmake "--color=" -[ 3%] Built target test_align_profile -[ 4%] Built target test_align_simd_local_equal_length +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/find /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find/CMakeFiles/test_find.dir/DependInfo.cmake "--color=" -make -f tests/gff_io/CMakeFiles/test_gff_io.dir/build.make tests/gff_io/CMakeFiles/test_gff_io.dir/depend -make -f tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build.make tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/depend -[ 4%] Built target test_basic_fundamental -[ 4%] Built target test_bam_io -make -f tests/graph_align/CMakeFiles/test_graph_align.dir/build.make tests/graph_align/CMakeFiles/test_graph_align.dir/depend -make -f tests/graph_msa/CMakeFiles/test_graph_msa.dir/build.make tests/graph_msa/CMakeFiles/test_graph_msa.dir/depend -[ 5%] Built target test_align_split -[ 5%] Built target test_arg_parse_version_check -[ 5%] Built target test_basic_alphabet +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_qgram.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_algorithms /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/DependInfo.cmake "--color=" -[ 5%] Built target test_basic_parallelism +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_creation.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_consensus +Consolidate compiler generated dependencies of target test_graph_types_utils +Consolidate compiler generated dependencies of target test_index_sa_bwtwalk +Consolidate compiler generated dependencies of target test_index_crosscompare_char_dfi +[ 8%] Built target test_basic_math +[ 8%] Built target test_bam_io +[ 8%] Built target test_basic_proxy +[ 12%] Built target test_index_qgram +[ 8%] Built target test_find +[ 8%] Built target test_graph_types_derived +[ 8%] Built target test_alignment_free +[ 8%] Built target test_graph_algorithms +[ 8%] Built target test_basic_smart_pointer +[ 8%] Built target test_index_creation +[ 8%] Built target test_graph_types_property_map +[ 8%] Built target test_graph_types_types +[ 12%] Built target test_basic_allocator +[ 8%] Built target test_index_crosscompare_dna +[ 8%] Built target test_graph_types_iterators +[ 8%] Built target test_blast +[ 8%] Built target test_arg_parse_version_check +[ 8%] Built target test_basic_container +[ 8%] Built target test_gff_io +[ 12%] Built target test_graph_align +[ 8%] Built target test_index_crosscompare_char +[ 12%] Built target test_index_crosscompare_dna_dfi +[ 8%] Built target test_graph_msa +[ 8%] Built target test_consensus_v2 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 10%] Built target test_basic_iterator +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build +make -f tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build.make tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_find_backtracking.dir/build.make tests/index/CMakeFiles/test_find_backtracking.dir/depend +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/consensus/CMakeFiles/test_consensus.dir/build.make tests/consensus/CMakeFiles/test_consensus.dir/build +make -f tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build +make -f tests/index/CMakeFiles/test_find2_index_approx.dir/build.make tests/index/CMakeFiles/test_find2_index_approx.dir/depend +make -f tests/index/CMakeFiles/test_index_repeats.dir/build.make tests/index/CMakeFiles/test_index_repeats.dir/depend +make -f tests/index/CMakeFiles/test_index_swift.dir/build.make tests/index/CMakeFiles/test_index_swift.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/gff_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/gff_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/gff_io/CMakeFiles/test_gff_io.dir/DependInfo.cmake "--color=" -make -f tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_derived.dir/depend -[ 6%] Built target mason_sim -make -f tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find_backtracking.dir/DependInfo.cmake "--color=" +make -f tests/journaled_set/CMakeFiles/test_journaled_set.dir/build.make tests/journaled_set/CMakeFiles/test_journaled_set.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align/CMakeFiles/test_graph_align.dir/DependInfo.cmake "--color=" -[ 6%] Built target test_basic_concept -make -f tests/graph_types/CMakeFiles/test_graph_types_types.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_types.dir/depend +make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/depend +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_msa /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa/CMakeFiles/test_graph_msa.dir/DependInfo.cmake "--color=" -make -f tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_utils.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_repeats.dir/DependInfo.cmake "--color=" +make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/DependInfo.cmake "--color=" -make -f tests/index/CMakeFiles/test_index_creation.dir/build.make tests/index/CMakeFiles/test_index_creation.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find2_index_approx.dir/DependInfo.cmake "--color=" +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_derived.dir/DependInfo.cmake "--color=" -[ 7%] Built target test_basic_allocator +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_swift.dir/DependInfo.cmake "--color=" +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/DependInfo.cmake "--color=" -[ 7%] Built target test_basic_aggregate -make -f tests/index/CMakeFiles/test_index_crosscompare_char.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char.dir/depend -make -f tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/depend -[ 7%] Built target test_basic_math -[ 7%] Built target test_alignment_free +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set/CMakeFiles/test_journaled_set.dir/DependInfo.cmake "--color=" +make -f tests/map/CMakeFiles/test_map.dir/build.make tests/map/CMakeFiles/test_map.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_types.dir/DependInfo.cmake "--color=" -make -f tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/DependInfo.cmake "--color=" +make -f tests/misc/CMakeFiles/test_misc.dir/build.make tests/misc/CMakeFiles/test_misc.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_utils.dir/DependInfo.cmake "--color=" -[ 7%] Built target test_basic_smart_pointer -make -f tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/DependInfo.cmake "--color=" +make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.dir/depend +make -f tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build.make tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/depend +make -f tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build.make tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_creation.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/consensus/CMakeFiles/test_consensus.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char.dir/DependInfo.cmake "--color=" -make -f tests/index/CMakeFiles/test_index_qgram.dir/build.make tests/index/CMakeFiles/test_index_qgram.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/DependInfo.cmake "--color=" -make -f tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build.make tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/depend +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna.dir/DependInfo.cmake "--color=" -make -f tests/index/CMakeFiles/test_index_shapes.dir/build.make tests/index/CMakeFiles/test_index_shapes.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/DependInfo.cmake "--color=" +make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/depend +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/map /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map/CMakeFiles/test_map.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_qgram.dir/DependInfo.cmake "--color=" -make -f tests/index/CMakeFiles/test_index_drawing.dir/build.make tests/index/CMakeFiles/test_index_drawing.dir/depend -make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/depend -[ 7%] Built target test_basic_container +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/DependInfo.cmake "--color=" -make -f tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build.make tests/index/CMakeFiles/test_index_fm_sparse_string.dir/depend -make -f tests/index/CMakeFiles/test_index_base.dir/build.make tests/index/CMakeFiles/test_index_base.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/DependInfo.cmake "--color=" +make -f tests/pipe/CMakeFiles/test_pipe.dir/build.make tests/pipe/CMakeFiles/test_pipe.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_shapes.dir/DependInfo.cmake "--color=" -Dependencies file "tests/bed_io/CMakeFiles/test_bed_io.dir/test_bed_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io/CMakeFiles/test_bed_io.dir/compiler_depend.internal". -make -f tests/index/CMakeFiles/test_index_fm.dir/build.make tests/index/CMakeFiles/test_index_fm.dir/depend -Dependencies file "tests/basic/CMakeFiles/test_basic_proxy.dir/test_basic_proxy.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_proxy.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier_cyclic_shape /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/DependInfo.cmake "--color=" +make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_drawing.dir/DependInfo.cmake "--color=" -Dependencies file "tests/blast/CMakeFiles/test_blast.dir/test_blast.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast/CMakeFiles/test_blast.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier/CMakeFiles/test_modifier.dir/DependInfo.cmake "--color=" +make -f tests/random/CMakeFiles/test_random.dir/build.make tests/random/CMakeFiles/test_random.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/DependInfo.cmake "--color=" -Dependencies file "tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/test_consensus_v2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/compiler_depend.internal". -Dependencies file "tests/basic/CMakeFiles/test_basic_proxy.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_proxy.dir/compiler_depend.internal". -Dependencies file "tests/bed_io/CMakeFiles/test_bed_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io/CMakeFiles/test_bed_io.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc/CMakeFiles/test_misc.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_sparse_string.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/DependInfo.cmake "--color=" +make -f tests/realign/CMakeFiles/test_realign.dir/build.make tests/realign/CMakeFiles/test_realign.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_base.dir/DependInfo.cmake "--color=" -Dependencies file "tests/blast/CMakeFiles/test_blast.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast/CMakeFiles/test_blast.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel/CMakeFiles/test_parallel.dir/DependInfo.cmake "--color=" +make -f tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build.make tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/depend +make -f tests/rna_io/CMakeFiles/test_rna_io.dir/build.make tests/rna_io/CMakeFiles/test_rna_io.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm.dir/DependInfo.cmake "--color=" -make -f tests/index/CMakeFiles/test_index_bifm.dir/build.make tests/index/CMakeFiles/test_index_bifm.dir/depend -Dependencies file "tests/consensus/CMakeFiles/test_consensus.dir/test_consensus.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus/CMakeFiles/test_consensus.dir/compiler_depend.internal". -Dependencies file "tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/compiler_depend.internal". -make -f tests/index/CMakeFiles/test_index_vstree.dir/build.make tests/index/CMakeFiles/test_index_vstree.dir/depend -Dependencies file "tests/basic/CMakeFiles/test_basic_iterator.dir/test_basic_iterator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_iterator.dir/compiler_depend.internal". -make -f tests/index/CMakeFiles/test_index_stree_iterators.dir/build.make tests/index/CMakeFiles/test_index_stree_iterators.dir/depend -Dependencies file "tests/find/CMakeFiles/test_find.dir/test_find.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find/CMakeFiles/test_find.dir/compiler_depend.internal". -make -f tests/index/CMakeFiles/test_index_view.dir/build.make tests/index/CMakeFiles/test_index_view.dir/depend -make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/depend -Dependencies file "tests/consensus/CMakeFiles/test_consensus.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus/CMakeFiles/test_consensus.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm/CMakeFiles/test_parse_lm.dir/DependInfo.cmake "--color=" +make -f tests/roi_io/CMakeFiles/test_roi_io.dir/build.make tests/roi_io/CMakeFiles/test_roi_io.dir/depend +make -f tests/score/CMakeFiles/test_score.dir/build.make tests/score/CMakeFiles/test_score.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/basic/CMakeFiles/test_basic_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_iterator.dir/compiler_depend.internal". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_bifm.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/pipe /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe/CMakeFiles/test_pipe.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_vstree.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target test_basic_proxy -make -f tests/index/CMakeFiles/test_find_backtracking.dir/build.make tests/index/CMakeFiles/test_find_backtracking.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/platform /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform/CMakeFiles/test_platform.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_stree_iterators.dir/DependInfo.cmake "--color=" -Dependencies file "tests/find/CMakeFiles/test_find.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find/CMakeFiles/test_find.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/random /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random/CMakeFiles/test_random.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_view.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target test_bed_io -make -f tests/index/CMakeFiles/test_find2_index_approx.dir/build.make tests/index/CMakeFiles/test_find2_index_approx.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/roi_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io/CMakeFiles/test_roi_io.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_finder.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/realign /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign/CMakeFiles/test_realign.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find_backtracking.dir/DependInfo.cmake "--color=" -make -f tests/index/CMakeFiles/test_index_repeats.dir/build.make tests/index/CMakeFiles/test_index_repeats.dir/depend -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_proxy.dir/build.make tests/basic/CMakeFiles/test_basic_proxy.dir/build -Dependencies file "tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/test_graph_algorithms.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/compiler_depend.internal". -Dependencies file "tests/gff_io/CMakeFiles/test_gff_io.dir/test_gff_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/gff_io/CMakeFiles/test_gff_io.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_blast -make -f tests/index/CMakeFiles/test_index_swift.dir/build.make tests/index/CMakeFiles/test_index_swift.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/score /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score/CMakeFiles/test_score.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find2_index_approx.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/gff_io/CMakeFiles/test_gff_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/gff_io/CMakeFiles/test_gff_io.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_basic_iterator -Dependencies file "tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/rna_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io/CMakeFiles/test_rna_io.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_repeats.dir/DependInfo.cmake "--color=" -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/test_graph_types_iterators.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/compiler_depend.internal". -Dependencies file "tests/graph_align/CMakeFiles/test_graph_align.dir/test_graph_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align/CMakeFiles/test_graph_align.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/graph_msa/CMakeFiles/test_graph_msa.dir/test_graph_msa.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa/CMakeFiles/test_graph_msa.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/reduced_aminoacid /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/DependInfo.cmake "--color=" +Dependencies file "tests/index/CMakeFiles/test_find_backtracking.dir/test_find_backtracking.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find_backtracking.dir/compiler_depend.internal". +[ 13%] Built target test_graph_types_utils +Dependencies file "tests/journaled_set/CMakeFiles/test_journaled_set.dir/test_journaled_set.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set/CMakeFiles/test_journaled_set.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_find2_index_approx.dir/test_find2_index_approx.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find2_index_approx.dir/compiler_depend.internal". +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/compiler_depend.internal". +make -f tests/seeds/CMakeFiles/test_seeds_combination.dir/build.make tests/seeds/CMakeFiles/test_seeds_combination.dir/depend +Dependencies file "tests/index/CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_repeats.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_find_backtracking.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find_backtracking.dir/compiler_depend.internal". +Dependencies file "tests/journaled_set/CMakeFiles/test_journaled_set.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set/CMakeFiles/test_journaled_set.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_find2_index_approx.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find2_index_approx.dir/compiler_depend.internal". +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_swift.dir/test_index_swift.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_swift.dir/compiler_depend.internal". +[ 13%] Built target test_index_crosscompare_char_dfi make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_swift.dir/DependInfo.cmake "--color=" -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/test_graph_types_property_map.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/compiler_depend.internal". -make -f tests/bed_io/CMakeFiles/test_bed_io.dir/build.make tests/bed_io/CMakeFiles/test_bed_io.dir/build -Consolidate compiler generated dependencies of target test_consensus_v2 -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_derived.dir/test_graph_types_derived.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_derived.dir/compiler_depend.internal". -make -f tests/basic/CMakeFiles/test_basic_iterator.dir/build.make tests/basic/CMakeFiles/test_basic_iterator.dir/build -Dependencies file "tests/graph_align/CMakeFiles/test_graph_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align/CMakeFiles/test_graph_align.dir/compiler_depend.internal". -make -f tests/blast/CMakeFiles/test_blast.dir/build.make tests/blast/CMakeFiles/test_blast.dir/build -Dependencies file "tests/graph_msa/CMakeFiles/test_graph_msa.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa/CMakeFiles/test_graph_msa.dir/compiler_depend.internal". -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_types.dir/test_graph_types_types.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_types.dir/compiler_depend.internal". -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/compiler_depend.internal". -make -f tests/journaled_set/CMakeFiles/test_journaled_set.dir/build.make tests/journaled_set/CMakeFiles/test_journaled_set.dir/depend -Dependencies file "tests/index/CMakeFiles/test_index_qgram.dir/test_index_qgram.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_qgram.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/depend -Consolidate compiler generated dependencies of target test_find -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_derived.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_derived.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_combination.dir/DependInfo.cmake "--color=" +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/test_journaled_string_tree_traverser.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/compiler_depend.internal". +make -f tests/seeds/CMakeFiles/test_seeds_extension.dir/build.make tests/seeds/CMakeFiles/test_seeds_extension.dir/depend +Dependencies file "tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/compiler_depend.internal". +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_repeats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_repeats.dir/compiler_depend.internal". +[ 13%] Built target test_consensus +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/compiler_depend.internal". +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_swift.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_swift.dir/compiler_depend.internal". +Dependencies file "tests/map/CMakeFiles/test_map.dir/test_map.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map/CMakeFiles/test_map.dir/compiler_depend.internal". +[ 13%] Built target test_index_sa_bwtwalk +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/compiler_depend.internal". +Dependencies file "tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/test_modifier_cyclic_shape.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/compiler_depend.internal". +Dependencies file "tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/compiler_depend.internal". +make -f tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build.make tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/depend +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_proxy.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/index/CMakeFiles/test_index_creation.dir/test_index_creation.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_creation.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_consensus -Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_char.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char.dir/compiler_depend.internal". -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_utils.dir/test_graph_types_utils.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_utils.dir/compiler_depend.internal". -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_types.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_types.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_extension.dir/DependInfo.cmake "--color=" +make -f tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_base.dir/depend +Dependencies file "tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/compiler_depend.internal". +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/compiler_depend.internal". +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/compiler_depend.internal". +Dependencies file "tests/map/CMakeFiles/test_map.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map/CMakeFiles/test_map.dir/compiler_depend.internal". +Dependencies file "tests/modifier/CMakeFiles/test_modifier.dir/test_modifier.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier/CMakeFiles/test_modifier.dir/compiler_depend.internal". +Dependencies file "tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/compiler_depend.internal". +Dependencies file "tests/parse_lm/CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm/CMakeFiles/test_parse_lm.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set/CMakeFiles/test_journaled_set.dir/DependInfo.cmake "--color=" -Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/test_index_crosscompare_char_dfi.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/compiler_depend.internal". -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_utils.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_utils.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_qgram.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_qgram.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_gff_io -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/test_index_crosscompare_dna_dfi.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_shapes.dir/test_index_shapes.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_shapes.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_creation.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_creation.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_graph_algorithms -Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_dna.dir/test_index_crosscompare_dna.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/test_index_sa_bwtwalk.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/DependInfo.cmake "--color=" +Dependencies file "tests/misc/CMakeFiles/test_misc.dir/test_misc.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc/CMakeFiles/test_misc.dir/compiler_depend.internal". +Dependencies file "tests/platform/CMakeFiles/test_platform.dir/test_platform.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform/CMakeFiles/test_platform.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_iterator.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_base.dir/DependInfo.cmake "--color=" +Dependencies file "tests/modifier/CMakeFiles/test_modifier.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier/CMakeFiles/test_modifier.dir/compiler_depend.internal". +Dependencies file "tests/platform/CMakeFiles/test_platform.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform/CMakeFiles/test_platform.dir/compiler_depend.internal". +Dependencies file "tests/parse_lm/CMakeFiles/test_parse_lm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm/CMakeFiles/test_parse_lm.dir/compiler_depend.internal". +Dependencies file "tests/parallel/CMakeFiles/test_parallel.dir/test_parallel.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel/CMakeFiles/test_parallel.dir/compiler_depend.internal". +Dependencies file "tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/compiler_depend.internal". +Dependencies file "tests/misc/CMakeFiles/test_misc.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc/CMakeFiles/test_misc.dir/compiler_depend.internal". +Dependencies file "tests/roi_io/CMakeFiles/test_roi_io.dir/test_roi_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io/CMakeFiles/test_roi_io.dir/compiler_depend.internal". +Dependencies file "tests/score/CMakeFiles/test_score.dir/test_score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score/CMakeFiles/test_score.dir/compiler_depend.internal". +Dependencies file "tests/parallel/CMakeFiles/test_parallel.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel/CMakeFiles/test_parallel.dir/compiler_depend.internal". +Dependencies file "tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/compiler_depend.internal". +Dependencies file "tests/realign/CMakeFiles/test_realign.dir/test_realign.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign/CMakeFiles/test_realign.dir/compiler_depend.internal". +Dependencies file "tests/pipe/CMakeFiles/test_pipe.dir/test_pipe.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe/CMakeFiles/test_pipe.dir/compiler_depend.internal". +Dependencies file "tests/random/CMakeFiles/test_random.dir/test_random.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random/CMakeFiles/test_random.dir/compiler_depend.internal". +Dependencies file "tests/score/CMakeFiles/test_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score/CMakeFiles/test_score.dir/compiler_depend.internal". +Dependencies file "tests/roi_io/CMakeFiles/test_roi_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io/CMakeFiles/test_roi_io.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_index_base +Consolidate compiler generated dependencies of target test_index_fm_sparse_string +Dependencies file "tests/random/CMakeFiles/test_random.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random/CMakeFiles/test_random.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_index_finder +Consolidate compiler generated dependencies of target test_index_view +Consolidate compiler generated dependencies of target test_index_vstree +Consolidate compiler generated dependencies of target test_index_fm +Consolidate compiler generated dependencies of target test_index_shapes +Consolidate compiler generated dependencies of target test_index_fm_rank_dictionary +Consolidate compiler generated dependencies of target test_index_stree_iterators +Dependencies file "tests/pipe/CMakeFiles/test_pipe.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe/CMakeFiles/test_pipe.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_index_drawing +Consolidate compiler generated dependencies of target test_journaled_set +Consolidate compiler generated dependencies of target test_index_bifm make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_graph_types_iterators +Dependencies file "tests/rna_io/CMakeFiles/test_rna_io.dir/test_rna_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io/CMakeFiles/test_rna_io.dir/compiler_depend.internal". +Dependencies file "tests/realign/CMakeFiles/test_realign.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign/CMakeFiles/test_realign.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/index/CMakeFiles/test_index_shapes.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_shapes.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build.make tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_dna.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_drawing.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/bed_io/CMakeFiles/test_bed_io.dir/build'. +make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_fm_sparse_string.dir/test_index_fm_sparse_string.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_sparse_string.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_graph_types_types -Consolidate compiler generated dependencies of target test_graph_types_derived -Dependencies file "tests/index/CMakeFiles/test_index_base.dir/test_index_base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_base.dir/compiler_depend.internal". -make -f tests/consensus/CMakeFiles/test_consensus.dir/build.make tests/consensus/CMakeFiles/test_consensus.dir/build -Consolidate compiler generated dependencies of target test_graph_types_property_map -Consolidate compiler generated dependencies of target test_graph_align -Dependencies file "tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_fm_sparse_string.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_sparse_string.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_drawing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_drawing.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_graph_msa -make -f tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build.make tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build -Dependencies file "tests/index/CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_finder.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/find/CMakeFiles/test_find.dir/build.make tests/find/CMakeFiles/test_find.dir/build -make -f tests/gff_io/CMakeFiles/test_gff_io.dir/build.make tests/gff_io/CMakeFiles/test_gff_io.dir/build -make -f tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build.make tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build -Dependencies file "tests/index/CMakeFiles/test_index_bifm.dir/test_index_bifm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_bifm.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_graph_types_utils -Dependencies file "tests/index/CMakeFiles/test_index_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_base.dir/compiler_depend.internal". -make -f tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/index/CMakeFiles/test_index_vstree.dir/test_index_vstree.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_vstree.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_fm.dir/test_index_fm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build -Dependencies file "tests/index/CMakeFiles/test_index_stree_iterators.dir/test_index_stree_iterators.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_stree_iterators.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_finder.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_finder.dir/compiler_depend.internal". -make -f tests/graph_msa/CMakeFiles/test_graph_msa.dir/build.make tests/graph_msa/CMakeFiles/test_graph_msa.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/blast/CMakeFiles/test_blast.dir/build'. +make -f tests/index/CMakeFiles/test_index_shapes.dir/build.make tests/index/CMakeFiles/test_index_shapes.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_index_crosscompare_char make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/index/CMakeFiles/test_index_view.dir/test_index_view.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_view.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_index_base.dir/build.make tests/index/CMakeFiles/test_index_base.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/graph_align/CMakeFiles/test_graph_align.dir/build.make tests/graph_align/CMakeFiles/test_graph_align.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_index_crosscompare_char_dfi -Dependencies file "tests/index/CMakeFiles/test_index_bifm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_bifm.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_index_crosscompare_dna_dfi -make -f tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build -Dependencies file "tests/index/CMakeFiles/test_index_vstree.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_vstree.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_fm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm.dir/compiler_depend.internal". -make -f tests/graph_types/CMakeFiles/test_graph_types_types.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_types.dir/build -Consolidate compiler generated dependencies of target test_index_qgram -Dependencies file "tests/index/CMakeFiles/test_find_backtracking.dir/test_find_backtracking.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find_backtracking.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_stree_iterators.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_stree_iterators.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_index_creation +make -f tests/index/CMakeFiles/test_index_drawing.dir/build.make tests/index/CMakeFiles/test_index_drawing.dir/build +make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build +Dependencies file "tests/rna_io/CMakeFiles/test_rna_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io/CMakeFiles/test_rna_io.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_index_fm.dir/build.make tests/index/CMakeFiles/test_index_fm.dir/build +Dependencies file "tests/seeds/CMakeFiles/test_seeds_extension.dir/test_seeds_extension.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_extension.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_index_bifm.dir/build.make tests/index/CMakeFiles/test_index_bifm.dir/build +Dependencies file "tests/seeds/CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_combination.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_index_vstree.dir/build.make tests/index/CMakeFiles/test_index_vstree.dir/build +make -f tests/index/CMakeFiles/test_index_stree_iterators.dir/build.make tests/index/CMakeFiles/test_index_stree_iterators.dir/build +make -f tests/index/CMakeFiles/test_index_view.dir/build.make tests/index/CMakeFiles/test_index_view.dir/build +make -f tests/journaled_set/CMakeFiles/test_journaled_set.dir/build.make tests/journaled_set/CMakeFiles/test_journaled_set.dir/build +Dependencies file "tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/test_seeds_global_chaining.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/compiler_depend.internal". +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_base.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_modifier +Consolidate compiler generated dependencies of target test_platform +Consolidate compiler generated dependencies of target test_index_swift +Consolidate compiler generated dependencies of target test_journaled_string_tree +Consolidate compiler generated dependencies of target test_modifier_cyclic_shape +Consolidate compiler generated dependencies of target test_find2_index_approx +Consolidate compiler generated dependencies of target test_random +Consolidate compiler generated dependencies of target test_multiple_translation_units +Consolidate compiler generated dependencies of target test_index_repeats make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/index/CMakeFiles/test_index_view.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_view.dir/compiler_depend.internal". +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_base.dir/compiler_depend.internal". +Dependencies file "tests/seeds/CMakeFiles/test_seeds_extension.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_extension.dir/compiler_depend.internal". +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_index_shapes -Consolidate compiler generated dependencies of target test_index_crosscompare_dna make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_crosscompare_char.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char.dir/build -Dependencies file "tests/index/CMakeFiles/test_find2_index_approx.dir/test_find2_index_approx.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find2_index_approx.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_find_backtracking.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find_backtracking.dir/compiler_depend.internal". -make -f tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build -Dependencies file "tests/index/CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_repeats.dir/compiler_depend.internal". +Dependencies file "tests/seeds/CMakeFiles/test_seeds_combination.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_combination.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build +make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_index_fm_rank_dictionary -Consolidate compiler generated dependencies of target test_index_fm_sparse_string -Consolidate compiler generated dependencies of target test_index_sa_bwtwalk -make -f tests/index/CMakeFiles/test_index_creation.dir/build.make tests/index/CMakeFiles/test_index_creation.dir/build -Dependencies file "tests/index/CMakeFiles/test_find2_index_approx.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find2_index_approx.dir/compiler_depend.internal". +Dependencies file "tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build -make -f tests/index/CMakeFiles/test_index_qgram.dir/build.make tests/index/CMakeFiles/test_index_qgram.dir/build -Consolidate compiler generated dependencies of target test_index_drawing -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/gff_io/CMakeFiles/test_gff_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/index/CMakeFiles/test_index_swift.dir/test_index_swift.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_swift.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_repeats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_repeats.dir/compiler_depend.internal". -make -f tests/index/CMakeFiles/test_index_shapes.dir/build.make tests/index/CMakeFiles/test_index_shapes.dir/build +make -f tests/index/CMakeFiles/test_find2_index_approx.dir/build.make tests/index/CMakeFiles/test_find2_index_approx.dir/build +make -f tests/index/CMakeFiles/test_index_repeats.dir/build.make tests/index/CMakeFiles/test_index_repeats.dir/build +make -f tests/index/CMakeFiles/test_index_swift.dir/build.make tests/index/CMakeFiles/test_index_swift.dir/build +make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.dir/build +make -f tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build.make tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build'. -make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_vstree.dir/build'. +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build.make tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build'. +make[3]: Nothing to be done for 'tests/journaled_set/CMakeFiles/test_journaled_set.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/find/CMakeFiles/test_find.dir/build'. +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_shapes.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build.make tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build -Dependencies file "tests/index/CMakeFiles/test_index_swift.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_swift.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_index_finder make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_index_base make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/graph_msa/CMakeFiles/test_graph_msa.dir/build'. +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_view.dir/build'. +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/consensus/CMakeFiles/test_consensus.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/random/CMakeFiles/test_random.dir/build.make tests/random/CMakeFiles/test_random.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_types.dir/build'. +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/platform/CMakeFiles/test_platform.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_index_bifm make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/graph_align/CMakeFiles/test_graph_align.dir/build'. -Consolidate compiler generated dependencies of target test_index_vstree -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build -Dependencies file "tests/journaled_set/CMakeFiles/test_journaled_set.dir/test_journaled_set.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set/CMakeFiles/test_journaled_set.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_drawing.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build'. +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_stree_iterators.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build.make tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build -Consolidate compiler generated dependencies of target test_index_fm -Consolidate compiler generated dependencies of target test_index_view -make -f tests/index/CMakeFiles/test_index_base.dir/build.make tests/index/CMakeFiles/test_index_base.dir/build -Consolidate compiler generated dependencies of target test_find_backtracking make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_crosscompare_char.dir/build'. -Consolidate compiler generated dependencies of target test_index_stree_iterators -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/journaled_set/CMakeFiles/test_journaled_set.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set/CMakeFiles/test_journaled_set.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_bifm.dir/build.make tests/index/CMakeFiles/test_index_bifm.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_index_swift -Consolidate compiler generated dependencies of target test_find2_index_approx -make -f tests/index/CMakeFiles/test_index_drawing.dir/build.make tests/index/CMakeFiles/test_index_drawing.dir/build -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'tests/modifier/CMakeFiles/test_modifier.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_fm.dir/build.make tests/index/CMakeFiles/test_index_fm.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_vstree.dir/build.make tests/index/CMakeFiles/test_index_vstree.dir/build -Consolidate compiler generated dependencies of target test_index_repeats -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_stree_iterators.dir/build.make tests/index/CMakeFiles/test_index_stree_iterators.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_qgram.dir/build'. +make[3]: Nothing to be done for 'tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build'. +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_find2_index_approx.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_swift.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_view.dir/build.make tests/index/CMakeFiles/test_index_view.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_creation.dir/build'. +make[3]: Nothing to be done for 'tests/random/CMakeFiles/test_random.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build'. -make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/build +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_repeats.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_shapes.dir/build'. +make[3]: Nothing to be done for 'tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 13%] Built target test_index_base +[ 13%] Built target test_index_shapes +[ 13%] Built target test_index_vstree +[ 13%] Built target test_index_fm_rank_dictionary +[ 13%] Built target test_index_fm_sparse_string +[ 13%] Built target test_index_drawing +[ 13%] Built target test_index_stree_iterators +[ 13%] Built target test_platform +Consolidate compiler generated dependencies of target test_parse_lm +Consolidate compiler generated dependencies of target test_basic_observable +Consolidate compiler generated dependencies of target test_misc +Consolidate compiler generated dependencies of target test_delta_map +Consolidate compiler generated dependencies of target test_journaled_string_tree_traverser +Consolidate compiler generated dependencies of target test_journaled_string_tree_find +Consolidate compiler generated dependencies of target test_map make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_find_backtracking.dir/build.make tests/index/CMakeFiles/test_find_backtracking.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_swift.dir/build.make tests/index/CMakeFiles/test_index_swift.dir/build -make -f tests/index/CMakeFiles/test_find2_index_approx.dir/build.make tests/index/CMakeFiles/test_find2_index_approx.dir/build -[ 7%] Built target test_basic_proxy -make -f tests/index/CMakeFiles/test_index_repeats.dir/build.make tests/index/CMakeFiles/test_index_repeats.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_journaled_set -Consolidate compiler generated dependencies of target test_basic_observable -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build +make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build +[ 14%] Built target test_journaled_string_tree +[ 14%] Built target test_modifier +[ 14%] Built target test_random +[ 14%] Built target test_index_swift +[ 14%] Built target test_index_repeats +Consolidate compiler generated dependencies of target test_find_backtracking +[ 14%] Built target test_index_view +[ 14%] Built target test_modifier_cyclic_shape +[ 15%] Built target test_find2_index_approx +[ 14%] Built target test_multiple_translation_units +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build +[ 14%] Built target test_journaled_set +make -f tests/map/CMakeFiles/test_map.dir/build.make tests/map/CMakeFiles/test_map.dir/build +make -f tests/misc/CMakeFiles/test_misc.dir/build.make tests/misc/CMakeFiles/test_misc.dir/build +make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_bifm.dir/build'. +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_finder.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_vstree.dir/build'. -[ 8%] Built target test_graph_algorithms -[ 8%] Built target test_blast +make -f tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/depend make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_find_backtracking.dir/build.make tests/index/CMakeFiles/test_find_backtracking.dir/build +make -f tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/depend +make -f tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/depend +make -f tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_fm.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 8%] Built target test_basic_iterator -[ 9%] Built target test_bed_io -[ 9%] Built target test_gff_io +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/DependInfo.cmake "--color=" +make -f tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/build.make tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_drawing.dir/build'. +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_bifm.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build.make tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_stree_iterators.dir/build'. +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_fm.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/seq_io/CMakeFiles/test_seq_io.dir/build.make tests/seq_io/CMakeFiles/test_seq_io.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_find2_index_approx.dir/build'. -[ 9%] Built target test_find -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_finder.dir/build'. +make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_find_backtracking.dir/build'. +make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 9%] Built target test_consensus make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_view.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_swift.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/misc/CMakeFiles/test_misc.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_repeats.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 9%] Built target test_consensus_v2 -[ 9%] Built target test_graph_types_derived -[ 9%] Built target test_graph_types_iterators +make[3]: Nothing to be done for 'tests/map/CMakeFiles/test_map.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/journaled_set/CMakeFiles/test_journaled_set.dir/build.make tests/journaled_set/CMakeFiles/test_journaled_set.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build'. +make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/depend -make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/depend -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/depend -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/depend -[ 9%] Built target test_graph_types_property_map -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/DependInfo.cmake "--color=" -[ 9%] Built target test_graph_types_types -make -f tests/map/CMakeFiles/test_map.dir/build.make tests/map/CMakeFiles/test_map.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/DependInfo.cmake "--color=" -make -f tests/misc/CMakeFiles/test_misc.dir/build.make tests/misc/CMakeFiles/test_misc.dir/depend -[ 10%] Built target test_graph_align -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/DependInfo.cmake "--color=" -make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/DependInfo.cmake "--color=" -make -f tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build.make tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/map /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map/CMakeFiles/test_map.dir/DependInfo.cmake "--color=" -make -f tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build.make tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/depend -[ 10%] Built target test_graph_msa -[ 10%] Built target test_index_fm_rank_dictionary -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc/CMakeFiles/test_misc.dir/DependInfo.cmake "--color=" -make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/depend -[ 10%] Built target test_index_crosscompare_char -[ 11%] Built target test_index_crosscompare_dna_dfi -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier/CMakeFiles/test_modifier.dir/DependInfo.cmake "--color=" -[ 12%] Built target test_graph_types_utils -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 12%] Built target test_index_fm_sparse_string -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier_cyclic_shape /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/DependInfo.cmake "--color=" -[ 12%] Built target test_index_creation -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/DependInfo.cmake "--color=" -[ 12%] Built target test_index_shapes -[ 12%] Built target test_index_crosscompare_char_dfi make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 12%] Built target test_index_crosscompare_dna -make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel/CMakeFiles/test_parallel.dir/DependInfo.cmake "--color=" -[ 13%] Built target test_index_qgram -make -f tests/pipe/CMakeFiles/test_pipe.dir/build.make tests/pipe/CMakeFiles/test_pipe.dir/depend -[ 13%] Built target test_index_sa_bwtwalk -make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/depend -[ 13%] Built target test_index_fm -make -f tests/random/CMakeFiles/test_random.dir/build.make tests/random/CMakeFiles/test_random.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/journaled_set/CMakeFiles/test_journaled_set.dir/build'. +make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm/CMakeFiles/test_parse_lm.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/realign/CMakeFiles/test_realign.dir/build.make tests/realign/CMakeFiles/test_realign.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/platform /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform/CMakeFiles/test_platform.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/pipe /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe/CMakeFiles/test_pipe.dir/DependInfo.cmake "--color=" -[ 13%] Built target test_index_base -make -f tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build.make tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/depend -make -f tests/rna_io/CMakeFiles/test_rna_io.dir/build.make tests/rna_io/CMakeFiles/test_rna_io.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/random /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random/CMakeFiles/test_random.dir/DependInfo.cmake "--color=" -make -f tests/roi_io/CMakeFiles/test_roi_io.dir/build.make tests/roi_io/CMakeFiles/test_roi_io.dir/depend -[ 13%] Built target test_index_drawing -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/realign /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign/CMakeFiles/test_realign.dir/DependInfo.cmake "--color=" -[ 13%] Built target test_index_vstree -[ 13%] Built target test_index_bifm -make -f tests/score/CMakeFiles/test_score.dir/build.make tests/score/CMakeFiles/test_score.dir/depend -make -f tests/seeds/CMakeFiles/test_seeds_combination.dir/build.make tests/seeds/CMakeFiles/test_seeds_combination.dir/depend -make -f tests/seeds/CMakeFiles/test_seeds_extension.dir/build.make tests/seeds/CMakeFiles/test_seeds_extension.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/rna_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io/CMakeFiles/test_rna_io.dir/DependInfo.cmake "--color=" -[ 13%] Built target test_index_stree_iterators -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 14%] Built target test_index_view -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/roi_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io/CMakeFiles/test_roi_io.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/reduced_aminoacid /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/DependInfo.cmake "--color=" -make -f tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build.make tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/score /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score/CMakeFiles/test_score.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_extension.dir/DependInfo.cmake "--color=" -[ 14%] Built target test_index_finder -make -f tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_base.dir/depend -[ 14%] Built target test_find_backtracking -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_combination.dir/DependInfo.cmake "--color=" -[ 14%] Built target test_index_repeats -make -f tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/depend -[ 14%] Built target test_index_swift -[ 15%] Built target test_find2_index_approx -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/DependInfo.cmake "--color=" -make -f tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_base.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/DependInfo.cmake "--color=" -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/compiler_depend.internal". -make -f tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/depend -[ 15%] Built target test_basic_observable -make -f tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/depend -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/compiler_depend.internal". -make -f tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/build.make tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/depend -make -f tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build.make tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/DependInfo.cmake "--color=" -make -f tests/seq_io/CMakeFiles/test_seq_io.dir/build.make tests/seq_io/CMakeFiles/test_seq_io.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/DependInfo.cmake "--color=" -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/compiler_depend.internal". -make -f tests/sequence/CMakeFiles/test_sequence.dir/build.make tests/sequence/CMakeFiles/test_sequence.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/compiler_depend.internal". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/DependInfo.cmake "--color=" -Dependencies file "tests/modifier/CMakeFiles/test_modifier.dir/test_modifier.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier/CMakeFiles/test_modifier.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/parse_lm/CMakeFiles/test_parse_lm.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/DependInfo.cmake "--color=" +make -f tests/sequence/CMakeFiles/test_sequence.dir/build.make tests/sequence/CMakeFiles/test_sequence.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seq_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io/CMakeFiles/test_seq_io.dir/DependInfo.cmake "--color=" -Dependencies file "tests/modifier/CMakeFiles/test_modifier.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier/CMakeFiles/test_modifier.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_find_backtracking.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/sequence/CMakeFiles/test_sequence_v2.dir/build.make tests/sequence/CMakeFiles/test_sequence_v2.dir/depend -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/test_journaled_string_tree_traverser.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/compiler_depend.internal". make -f tests/sequence/CMakeFiles/test_stringset_v2.dir/build.make tests/sequence/CMakeFiles/test_stringset_v2.dir/depend -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/compiler_depend.internal". make -f tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build.make tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/depend -Dependencies file "tests/misc/CMakeFiles/test_misc.dir/test_misc.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc/CMakeFiles/test_misc.dir/compiler_depend.internal". -Dependencies file "tests/parallel/CMakeFiles/test_parallel.dir/test_parallel.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel/CMakeFiles/test_parallel.dir/compiler_depend.internal". -Dependencies file "tests/platform/CMakeFiles/test_platform.dir/test_platform.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform/CMakeFiles/test_platform.dir/compiler_depend.internal". make -f tests/simd/CMakeFiles/test_simd_vector.dir/build.make tests/simd/CMakeFiles/test_simd_vector.dir/depend -Dependencies file "tests/map/CMakeFiles/test_map.dir/test_map.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map/CMakeFiles/test_map.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence_v2.dir/DependInfo.cmake "--color=" -Dependencies file "tests/platform/CMakeFiles/test_platform.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform/CMakeFiles/test_platform.dir/compiler_depend.internal". -Dependencies file "tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/compiler_depend.internal". -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/compiler_depend.internal". +make -f tests/simd/CMakeFiles/test_simd_vector_sse4.dir/build.make tests/simd/CMakeFiles/test_simd_vector_sse4.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_stringset_v2.dir/DependInfo.cmake "--color=" -make -f tests/simd/CMakeFiles/test_simd_vector_sse4.dir/build.make tests/simd/CMakeFiles/test_simd_vector_sse4.dir/depend -Dependencies file "tests/parallel/CMakeFiles/test_parallel.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel/CMakeFiles/test_parallel.dir/compiler_depend.internal". -Dependencies file "tests/misc/CMakeFiles/test_misc.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc/CMakeFiles/test_misc.dir/compiler_depend.internal". -Dependencies file "tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/test_modifier_cyclic_shape.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/compiler_depend.internal". -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/compiler_depend.internal". -make -f tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build.make tests/simd/CMakeFiles/test_simd_vector_avx2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence_journaled /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence_journaled /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/DependInfo.cmake "--color=" -Dependencies file "tests/map/CMakeFiles/test_map.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map/CMakeFiles/test_map.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/simd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector.dir/DependInfo.cmake "--color=" -Dependencies file "tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/compiler_depend.internal". +make -f tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build.make tests/simd/CMakeFiles/test_simd_vector_avx2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/simd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_sse4.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target test_modifier -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/simd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_avx2.dir/DependInfo.cmake "--color=" -Dependencies file "tests/parse_lm/CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm/CMakeFiles/test_parse_lm.dir/compiler_depend.internal". -Dependencies file "tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/compiler_depend.internal". make -f tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/build.make tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/depend -Dependencies file "tests/pipe/CMakeFiles/test_pipe.dir/test_pipe.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe/CMakeFiles/test_pipe.dir/compiler_depend.internal". -[ 15%] Built target test_journaled_set make -f tests/statistics/CMakeFiles/test_statistics.dir/build.make tests/statistics/CMakeFiles/test_statistics.dir/depend -Dependencies file "tests/random/CMakeFiles/test_random.dir/test_random.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random/CMakeFiles/test_random.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_delta_map -Consolidate compiler generated dependencies of target test_platform -Consolidate compiler generated dependencies of target test_journaled_string_tree make -f tests/store/CMakeFiles/test_store.dir/build.make tests/store/CMakeFiles/test_store.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/random/CMakeFiles/test_random.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random/CMakeFiles/test_random.dir/compiler_depend.internal". -Dependencies file "tests/parse_lm/CMakeFiles/test_parse_lm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm/CMakeFiles/test_parse_lm.dir/compiler_depend.internal". make -f tests/stream/CMakeFiles/test_stream.dir/build.make tests/stream/CMakeFiles/test_stream.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/simple_intervals_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/statistics /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics/CMakeFiles/test_statistics.dir/DependInfo.cmake "--color=" -Dependencies file "tests/pipe/CMakeFiles/test_pipe.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe/CMakeFiles/test_pipe.dir/compiler_depend.internal". -Dependencies file "tests/realign/CMakeFiles/test_realign.dir/test_realign.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign/CMakeFiles/test_realign.dir/compiler_depend.internal". -Dependencies file "tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/compiler_depend.internal". -Dependencies file "tests/seeds/CMakeFiles/test_seeds_extension.dir/test_seeds_extension.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_extension.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_parallel +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/simd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_avx2.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store/CMakeFiles/test_store.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target test_misc -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/roi_io/CMakeFiles/test_roi_io.dir/test_roi_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io/CMakeFiles/test_roi_io.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_modifier_cyclic_shape -Dependencies file "tests/seeds/CMakeFiles/test_seeds_extension.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_extension.dir/compiler_depend.internal". -Dependencies file "tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/compiler_depend.internal". -Dependencies file "tests/realign/CMakeFiles/test_realign.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign/CMakeFiles/test_realign.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/seeds/CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_combination.dir/compiler_depend.internal". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/simple_intervals_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/DependInfo.cmake "--color=" -Dependencies file "tests/score/CMakeFiles/test_score.dir/test_score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score/CMakeFiles/test_score.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build -Consolidate compiler generated dependencies of target test_journaled_string_tree_traverser make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/stream /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream/CMakeFiles/test_stream.dir/DependInfo.cmake "--color=" -Dependencies file "tests/roi_io/CMakeFiles/test_roi_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io/CMakeFiles/test_roi_io.dir/compiler_depend.internal". -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/test_seeds_seed_chained.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/compiler_depend.internal". -make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build -Dependencies file "tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/test_seeds_global_chaining.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_journaled_string_tree_find -Dependencies file "tests/rna_io/CMakeFiles/test_rna_io.dir/test_rna_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io/CMakeFiles/test_rna_io.dir/compiler_depend.internal". -make -f tests/misc/CMakeFiles/test_misc.dir/build.make tests/misc/CMakeFiles/test_misc.dir/build -Dependencies file "tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_map -make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.dir/build -Dependencies file "tests/score/CMakeFiles/test_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score/CMakeFiles/test_score.dir/compiler_depend.internal". -Dependencies file "tests/seeds/CMakeFiles/test_seeds_combination.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_combination.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_random -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/test_seeds_seed_diagonal.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_base.dir/compiler_depend.internal". -Dependencies file "tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/compiler_depend.internal". -Dependencies file "tests/rna_io/CMakeFiles/test_rna_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io/CMakeFiles/test_rna_io.dir/compiler_depend.internal". -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build +[ 15%] Built target test_index_finder +[ 15%] Built target test_index_bifm Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/test_seeds_seed_set_base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/compiler_depend.internal". -make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/build -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/test_seeds_seed_set_unordered.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_parse_lm -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build.make tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build -Consolidate compiler generated dependencies of target test_pipe -make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/build -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_base.dir/compiler_depend.internal". +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/test_seeds_seed_diagonal.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/compiler_depend.internal". +make -f tests/swift_local/CMakeFiles/test_find_swift.dir/build.make tests/swift_local/CMakeFiles/test_find_swift.dir/depend +[ 15%] Built target test_delta_map +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/test_seeds_seed_chained.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/compiler_depend.internal". +[ 15%] Built target test_journaled_string_tree_find +make -f tests/tabix_io/CMakeFiles/test_tabix_io.dir/build.make tests/tabix_io/CMakeFiles/test_tabix_io.dir/depend +[ 17%] Built target test_map +[ 18%] Built target test_parse_lm +[ 18%] Built target test_journaled_string_tree_traverser Dependencies file "tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/compiler_depend.internal". -Dependencies file "tests/seq_io/CMakeFiles/test_seq_io.dir/test_seq_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io/CMakeFiles/test_seq_io.dir/compiler_depend.internal". -Dependencies file "tests/sequence/CMakeFiles/test_sequence.dir/test_sequence.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence.dir/compiler_depend.internal". Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/compiler_depend.internal". -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/compiler_depend.internal". -Dependencies file "tests/sequence/CMakeFiles/test_sequence_v2.dir/test_sequence_v2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence_v2.dir/compiler_depend.internal". -make -f tests/random/CMakeFiles/test_random.dir/build.make tests/random/CMakeFiles/test_random.dir/build -Dependencies file "tests/sequence/CMakeFiles/test_sequence.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence.dir/compiler_depend.internal". -make -f tests/swift_local/CMakeFiles/test_find_swift.dir/build.make tests/swift_local/CMakeFiles/test_find_swift.dir/depend -Dependencies file "tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/test_align_banded_chain_impl.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/swift_local /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local/CMakeFiles/test_find_swift.dir/DependInfo.cmake "--color=" +make -f tests/translation/CMakeFiles/test_translation.dir/build.make tests/translation/CMakeFiles/test_translation.dir/depend +[ 18%] Built target test_index_fm +Dependencies file "tests/seq_io/CMakeFiles/test_seq_io.dir/test_seq_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io/CMakeFiles/test_seq_io.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io/CMakeFiles/test_tabix_io.dir/DependInfo.cmake "--color=" +make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/depend +[ 18%] Built target test_misc +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/compiler_depend.internal". Dependencies file "tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/compiler_depend.internal". +make -f tests/vcf_io/CMakeFiles/test_vcf_io.dir/build.make tests/vcf_io/CMakeFiles/test_vcf_io.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/translation /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation/CMakeFiles/test_translation.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/build.make demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/depend Dependencies file "tests/seq_io/CMakeFiles/test_seq_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io/CMakeFiles/test_seq_io.dir/compiler_depend.internal". -Dependencies file "tests/sequence/CMakeFiles/test_sequence_v2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence_v2.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_seeds_extension -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/map/CMakeFiles/test_map.dir/build.make tests/map/CMakeFiles/test_map.dir/build +[ 18%] Built target test_basic_observable +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_align_align.dir/build.make demos/CMakeFiles/demo_dox_align_align.dir/depend +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/test_seeds_seed_set_unordered.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/vcf_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io/CMakeFiles/test_vcf_io.dir/DependInfo.cmake "--color=" +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build.make demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/depend +make -f demos/CMakeFiles/demo_dox_align_gaps_example.dir/build.make demos/CMakeFiles/demo_dox_align_gaps_example.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/depend Dependencies file "tests/sequence/CMakeFiles/test_stringset_v2.dir/test_stringset_v2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_stringset_v2.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/test_align_banded_chain_impl.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/misc/CMakeFiles/test_misc.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_align.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/modifier/CMakeFiles/test_modifier.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_realign -Consolidate compiler generated dependencies of target test_roi_io -Consolidate compiler generated dependencies of target test_score +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix 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-Consolidate compiler generated dependencies of target test_reduced_aminoacid -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/compiler_depend.internal". -make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/build -Dependencies file "tests/simd/CMakeFiles/test_simd_vector_avx2.dir/test_simd_vector.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_avx2.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_gaps_example.dir/DependInfo.cmake "--color=" Dependencies file "tests/sequence/CMakeFiles/test_stringset_v2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_stringset_v2.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 18%] Built target test_find_backtracking +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/DependInfo.cmake "--color=" +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/compiler_depend.internal". +Dependencies file "tests/sequence/CMakeFiles/test_sequence_v2.dir/test_sequence_v2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence_v2.dir/compiler_depend.internal". +Dependencies file "tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/link.d" is newer than depends file 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Dependencies file "tests/simd/CMakeFiles/test_simd_vector.dir/test_simd_vector.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector.dir/compiler_depend.internal". +Dependencies file "tests/sequence/CMakeFiles/test_sequence.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence.dir/compiler_depend.internal". +Dependencies file "tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/DependInfo.cmake "--color=" +Dependencies file "tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/test_simple_intervals_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/compiler_depend.internal". +Dependencies file "tests/simd/CMakeFiles/test_simd_vector_avx2.dir/test_simd_vector.cpp.o.d" is newer than depends file 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than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_avx2.dir/compiler_depend.internal". +Dependencies file "tests/simd/CMakeFiles/test_simd_vector_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_sse4.dir/compiler_depend.internal". +Dependencies file "tests/statistics/CMakeFiles/test_statistics.dir/test_statistics.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics/CMakeFiles/test_statistics.dir/compiler_depend.internal". +Dependencies file "tests/store/CMakeFiles/test_store.dir/test_store.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store/CMakeFiles/test_store.dir/compiler_depend.internal". +Dependencies file "tests/statistics/CMakeFiles/test_statistics.dir/link.d" is newer than depends file 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"/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/compiler_depend.internal". +Dependencies file "tests/tabix_io/CMakeFiles/test_tabix_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io/CMakeFiles/test_tabix_io.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_align_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_align.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/compiler_depend.internal". +Dependencies file "tests/vcf_io/CMakeFiles/test_vcf_io.dir/test_vcf_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io/CMakeFiles/test_vcf_io.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/compiler_depend.internal". +Dependencies file "tests/vcf_io/CMakeFiles/test_vcf_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io/CMakeFiles/test_vcf_io.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_score +Consolidate compiler generated dependencies of target test_reduced_aminoacid +Consolidate compiler generated dependencies of target test_seeds_global_chaining +Consolidate compiler generated dependencies of target test_seeds_seed_base +Consolidate compiler generated dependencies of target test_seeds_extension +Consolidate compiler generated dependencies of target test_pipe +Consolidate compiler generated dependencies of target test_parallel +Consolidate compiler generated dependencies of target test_seeds_banded_chain_alignment_interface +Consolidate compiler generated dependencies of target test_realign +Consolidate compiler generated dependencies of target test_roi_io +Consolidate compiler generated dependencies of target test_rna_io +Consolidate compiler generated dependencies of target test_seeds_combination make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/pipe/CMakeFiles/test_pipe.dir/build.make tests/pipe/CMakeFiles/test_pipe.dir/build -make -f tests/seeds/CMakeFiles/test_seeds_extension.dir/build.make tests/seeds/CMakeFiles/test_seeds_extension.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/simd/CMakeFiles/test_simd_vector_sse4.dir/test_simd_vector.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_sse4.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_seeds_combination make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/platform/CMakeFiles/test_platform.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/simd/CMakeFiles/test_simd_vector_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_avx2.dir/compiler_depend.internal". -Dependencies file "tests/simd/CMakeFiles/test_simd_vector.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector.dir/compiler_depend.internal". make -f tests/realign/CMakeFiles/test_realign.dir/build.make tests/realign/CMakeFiles/test_realign.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/parallel/CMakeFiles/test_parallel.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/roi_io/CMakeFiles/test_roi_io.dir/build.make tests/roi_io/CMakeFiles/test_roi_io.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_rna_io -Consolidate compiler generated dependencies of target test_seeds_seed_chained +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/build +make -f tests/pipe/CMakeFiles/test_pipe.dir/build.make tests/pipe/CMakeFiles/test_pipe.dir/build make -f tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build.make tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build -Consolidate compiler generated dependencies of target test_seeds_global_chaining -Dependencies file "tests/simd/CMakeFiles/test_simd_vector_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_sse4.dir/compiler_depend.internal". +make -f tests/rna_io/CMakeFiles/test_rna_io.dir/build.make tests/rna_io/CMakeFiles/test_rna_io.dir/build +make -f tests/roi_io/CMakeFiles/test_roi_io.dir/build.make tests/roi_io/CMakeFiles/test_roi_io.dir/build make -f tests/score/CMakeFiles/test_score.dir/build.make tests/score/CMakeFiles/test_score.dir/build -Consolidate compiler generated dependencies of target test_multiple_translation_units -Consolidate compiler generated dependencies of target test_seeds_seed_diagonal +make -f tests/seeds/CMakeFiles/test_seeds_combination.dir/build.make tests/seeds/CMakeFiles/test_seeds_combination.dir/build +make -f tests/seeds/CMakeFiles/test_seeds_extension.dir/build.make tests/seeds/CMakeFiles/test_seeds_extension.dir/build +make -f tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build.make tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build +make -f tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build.make tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build'. +make[3]: Nothing to be done for 'tests/parallel/CMakeFiles/test_parallel.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_sequence -Dependencies file "tests/statistics/CMakeFiles/test_statistics.dir/test_statistics.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics/CMakeFiles/test_statistics.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_seeds_seed_base -Dependencies file "tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/test_sequence_journaled.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build'. +make[3]: Nothing to be done for 'tests/pipe/CMakeFiles/test_pipe.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/rna_io/CMakeFiles/test_rna_io.dir/build.make tests/rna_io/CMakeFiles/test_rna_io.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/realign/CMakeFiles/test_realign.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_seeds_seed_set_base +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_seeds_seed_set_unordered -make -f tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build.make tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build -Consolidate compiler generated dependencies of target test_seq_io +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/rna_io/CMakeFiles/test_rna_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_sequence_v2 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/score/CMakeFiles/test_score.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build.make tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build -Dependencies file "tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/roi_io/CMakeFiles/test_roi_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_combination.dir/build.make tests/seeds/CMakeFiles/test_seeds_combination.dir/build -Dependencies file "tests/statistics/CMakeFiles/test_statistics.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics/CMakeFiles/test_statistics.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_combination.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_stringset_v2 -make -f tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_extension.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_seeds_banded_chain_alignment_interface +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 18%] Built target test_parallel +[ 18%] Built target test_seeds_seed_base +[ 18%] Built target test_realign +[ 18%] Built target test_pipe +[ 18%] Built target test_reduced_aminoacid +make -f demos/CMakeFiles/demo_dox_align_integrate_align.dir/build.make demos/CMakeFiles/demo_dox_align_integrate_align.dir/depend +Consolidate compiler generated dependencies of target test_translation +Consolidate compiler generated dependencies of target demo_dox_align_compute_alignment_stats +Consolidate compiler generated dependencies of target test_stringset_v2 +Consolidate compiler generated dependencies of target demo_blast_blast_in_lowlevel +Consolidate compiler generated dependencies of target test_ucsc_io +Consolidate compiler generated dependencies of target demo_dox_align_gaps_example +Consolidate compiler generated dependencies of target test_simd_vector_sse4 +Consolidate compiler generated dependencies of target test_sequence +Consolidate compiler generated dependencies of target test_stream Consolidate compiler generated dependencies of target test_simd_vector +Consolidate compiler generated dependencies of target test_sequence_v2 +Consolidate compiler generated dependencies of target demo_dox_align_align +Consolidate compiler generated dependencies of target test_store Consolidate compiler generated dependencies of target test_simd_vector_avx2 +Consolidate compiler generated dependencies of target test_simple_intervals_io +Consolidate compiler generated dependencies of target demo_dox_align_global_alignment_banded +Consolidate compiler generated dependencies of target test_sequence_journaled +Consolidate compiler generated dependencies of target demo_dox_align_global_alignment_unbanded +Consolidate compiler generated dependencies of target test_statistics +Consolidate compiler generated dependencies of target test_seeds_seed_set_base +Consolidate compiler generated dependencies of target test_seeds_align_banded_chain_impl +Consolidate compiler generated dependencies of target test_seeds_seed_diagonal +Consolidate compiler generated dependencies of target test_find_swift +Consolidate compiler generated dependencies of target test_seeds_seed_set_unordered +Consolidate compiler generated dependencies of target test_seeds_seed_chained +make -f demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/depend +[ 19%] Built target test_seeds_extension +make -f demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/build.make demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/depend +make -f demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/build.make demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/depend +make -f demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/test_simple_intervals_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/stream/CMakeFiles/test_stream.dir/test_stream.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream/CMakeFiles/test_stream.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_integrate_align.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build -Consolidate compiler generated dependencies of target test_simd_vector_sse4 -make -f tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build +make -f tests/sequence/CMakeFiles/test_stringset_v2.dir/build.make tests/sequence/CMakeFiles/test_stringset_v2.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/map/CMakeFiles/test_map.dir/build'. -Dependencies file "tests/stream/CMakeFiles/test_stream.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream/CMakeFiles/test_stream.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/pipe/CMakeFiles/test_pipe.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build +make -f tests/translation/CMakeFiles/test_translation.dir/build.make tests/translation/CMakeFiles/test_translation.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seq_io/CMakeFiles/test_seq_io.dir/build.make tests/seq_io/CMakeFiles/test_seq_io.dir/build +make -f tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/build.make tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/sequence/CMakeFiles/test_sequence.dir/build.make tests/sequence/CMakeFiles/test_sequence.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/roi_io/CMakeFiles/test_roi_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build.make tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build -Dependencies file "tests/store/CMakeFiles/test_store.dir/test_store.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store/CMakeFiles/test_store.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/parse_lm/CMakeFiles/test_parse_lm.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/sequence/CMakeFiles/test_sequence_v2.dir/build.make tests/sequence/CMakeFiles/test_sequence_v2.dir/build -make[3]: Nothing to be done for 'tests/random/CMakeFiles/test_random.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/realign/CMakeFiles/test_realign.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_sequence_journaled -make -f tests/sequence/CMakeFiles/test_stringset_v2.dir/build.make tests/sequence/CMakeFiles/test_stringset_v2.dir/build -Consolidate compiler generated dependencies of target test_seeds_align_banded_chain_impl -Dependencies file "tests/store/CMakeFiles/test_store.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store/CMakeFiles/test_store.dir/compiler_depend.internal". -make -f tests/simd/CMakeFiles/test_simd_vector.dir/build.make tests/simd/CMakeFiles/test_simd_vector.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_extension.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/score/CMakeFiles/test_score.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/simd/CMakeFiles/test_simd_vector_sse4.dir/build.make tests/simd/CMakeFiles/test_simd_vector_sse4.dir/build -Consolidate compiler generated dependencies of target test_stream make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_statistics -Consolidate compiler generated dependencies of target test_simple_intervals_io -make -f tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build.make tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build.make tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/rna_io/CMakeFiles/test_rna_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/stream/CMakeFiles/test_stream.dir/build.make tests/stream/CMakeFiles/test_stream.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_combination.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build +make -f tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build +make -f tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build +make -f tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build make -f tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/build.make tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/build -make -f tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/build.make tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/build +make -f tests/sequence/CMakeFiles/test_sequence.dir/build.make tests/sequence/CMakeFiles/test_sequence.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build'. +make -f tests/sequence/CMakeFiles/test_sequence_v2.dir/build.make tests/sequence/CMakeFiles/test_sequence_v2.dir/build +make[3]: Nothing to be done for 'tests/translation/CMakeFiles/test_translation.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build.make tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build +make -f tests/simd/CMakeFiles/test_simd_vector.dir/build.make tests/simd/CMakeFiles/test_simd_vector.dir/build +make -f tests/simd/CMakeFiles/test_simd_vector_sse4.dir/build.make tests/simd/CMakeFiles/test_simd_vector_sse4.dir/build +make -f tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build.make tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build'. +make[3]: Nothing to be done for 'tests/sequence/CMakeFiles/test_stringset_v2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/swift_local/CMakeFiles/test_find_swift.dir/test_find_swift.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local/CMakeFiles/test_find_swift.dir/compiler_depend.internal". make -f tests/statistics/CMakeFiles/test_statistics.dir/build.make tests/statistics/CMakeFiles/test_statistics.dir/build +make -f tests/store/CMakeFiles/test_store.dir/build.make tests/store/CMakeFiles/test_store.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build'. +make[3]: Nothing to be done for 'tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/stream/CMakeFiles/test_stream.dir/build.make tests/stream/CMakeFiles/test_stream.dir/build +make -f tests/swift_local/CMakeFiles/test_find_swift.dir/build.make tests/swift_local/CMakeFiles/test_find_swift.dir/build +make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build +make -f demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/build.make demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/sequence/CMakeFiles/test_stringset_v2.dir/build'. +make[3]: Nothing to be done for 'tests/sequence/CMakeFiles/test_sequence.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_align_align.dir/build.make demos/CMakeFiles/demo_dox_align_align.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/sequence/CMakeFiles/test_sequence.dir/build'. +make[3]: Nothing to be done for 'tests/sequence/CMakeFiles/test_sequence_v2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_store +make -f demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build.make demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build'. +make[3]: Nothing to be done for 'tests/simd/CMakeFiles/test_simd_vector.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/swift_local/CMakeFiles/test_find_swift.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local/CMakeFiles/test_find_swift.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/simd/CMakeFiles/test_simd_vector_sse4.dir/build'. +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build'. +make -f demos/CMakeFiles/demo_dox_align_gaps_example.dir/build.make demos/CMakeFiles/demo_dox_align_gaps_example.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/sequence/CMakeFiles/test_sequence_v2.dir/build'. +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build'. +make[3]: Nothing to be done for 'tests/simd/CMakeFiles/test_simd_vector_sse4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/simd/CMakeFiles/test_simd_vector.dir/build'. +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build +Dependencies file "demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/dox/align_extend/extend_alignment.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/dox/align_profile/profile_seq_frac_score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seq_io/CMakeFiles/test_seq_io.dir/build'. +make[3]: Nothing to be done for 'tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build'. +make -f demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 15%] Built target test_journaled_string_tree +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/store/CMakeFiles/test_store.dir/build.make tests/store/CMakeFiles/test_store.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build'. +make[3]: Nothing to be done for 'tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tests/stream/CMakeFiles/test_stream.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build'. +make[3]: Nothing to be done for 'tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build'. +make[3]: Nothing to be done for 'tests/store/CMakeFiles/test_store.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 15%] Built target test_modifier -[ 15%] Built target test_delta_map -[ 15%] Built target test_misc +Dependencies file "demos/CMakeFiles/demo_dox_align_integrate_align.dir/dox/align/integrate_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_integrate_align.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_align.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_find_swift +Dependencies file "demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/dox/align_profile/profile_seq_score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/statistics/CMakeFiles/test_statistics.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/swift_local/CMakeFiles/test_find_swift.dir/build.make tests/swift_local/CMakeFiles/test_find_swift.dir/build -[ 15%] Built target test_journaled_string_tree_traverser make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/store/CMakeFiles/test_store.dir/build'. +make[3]: Nothing to be done for 'tests/statistics/CMakeFiles/test_statistics.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 15%] Built target test_platform -[ 17%] Built target test_map -[ 17%] Built target test_journaled_string_tree_find -[ 17%] Built target test_parallel -[ 18%] Built target test_parse_lm -[ 18%] Built target test_modifier_cyclic_shape -[ 18%] Built target test_score -[ 18%] Built target test_random -[ 18%] Built target test_seeds_extension -make -f tests/tabix_io/CMakeFiles/test_tabix_io.dir/build.make tests/tabix_io/CMakeFiles/test_tabix_io.dir/depend -make -f tests/translation/CMakeFiles/test_translation.dir/build.make tests/translation/CMakeFiles/test_translation.dir/depend -[ 18%] Built target test_pipe -[ 18%] Built target test_roi_io -[ 18%] Built target test_realign -make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/depend -make -f tests/vcf_io/CMakeFiles/test_vcf_io.dir/build.make tests/vcf_io/CMakeFiles/test_vcf_io.dir/depend -make -f demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/build.make demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io/CMakeFiles/test_tabix_io.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_align_align.dir/build.make demos/CMakeFiles/demo_dox_align_align.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/translation /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation/CMakeFiles/test_translation.dir/DependInfo.cmake "--color=" -[ 18%] Built target test_seeds_seed_set_unordered -make -f demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build.make demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tests/swift_local/CMakeFiles/test_find_swift.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_align_gaps_example.dir/build.make demos/CMakeFiles/demo_dox_align_gaps_example.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/vcf_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io/CMakeFiles/test_vcf_io.dir/DependInfo.cmake "--color=" -[ 18%] Built target test_reduced_aminoacid -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_align.dir/DependInfo.cmake "--color=" -[ 18%] Built target test_seeds_combination -[ 18%] Built target test_multiple_translation_units -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/DependInfo.cmake "--color=" -[ 20%] Built target test_rna_io -[ 20%] Built target test_seeds_global_chaining -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 20%] Built target test_seeds_seed_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_gaps_example.dir/DependInfo.cmake "--color=" -[ 20%] Built target test_seeds_seed_chained -make -f demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/depend -make -f demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/depend -[ 20%] Built target test_seeds_seed_diagonal -make -f demos/CMakeFiles/demo_dox_align_integrate_align.dir/build.make demos/CMakeFiles/demo_dox_align_integrate_align.dir/depend -[ 20%] Built target test_seeds_seed_set_base -make -f demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 20%] Built target test_seeds_banded_chain_alignment_interface -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/build.make demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/depend -[ 20%] Built target test_sequence -make -f demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/build.make demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/depend -[ 21%] Built target test_seq_io -make -f demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_gaps_example.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_integrate_align.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/build.make demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/DependInfo.cmake "--color=" -[ 21%] Built target test_sequence_v2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/dox/arg_parse/argument_parser.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_seq_io +Consolidate compiler generated dependencies of target test_tabix_io +Consolidate compiler generated dependencies of target test_vcf_io +Dependencies file "demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_align_integrate_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_integrate_align.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/tabix_io/CMakeFiles/test_tabix_io.dir/build.make tests/tabix_io/CMakeFiles/test_tabix_io.dir/build +make -f tests/seq_io/CMakeFiles/test_seq_io.dir/build.make tests/seq_io/CMakeFiles/test_seq_io.dir/build +make -f tests/vcf_io/CMakeFiles/test_vcf_io.dir/build.make tests/vcf_io/CMakeFiles/test_vcf_io.dir/build +[ 19%] Built target test_roi_io +[ 19%] Built target test_seeds_combination +[ 19%] Built target test_seeds_banded_chain_alignment_interface +[ 19%] Built target test_score +[ 20%] Built target test_sequence_journaled make -f demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/depend -[ 21%] Built target test_stringset_v2 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/DependInfo.cmake "--color=" -[ 22%] Built target test_simd_vector_sse4 -[ 22%] Built target test_simd_vector -[ 22%] Built target test_stream -[ 22%] Built target test_sequence_journaled +[ 20%] Built target test_find_swift +[ 23%] Built target demo_dox_align_global_alignment_unbanded +[ 20%] Built target test_seeds_seed_set_unordered +[ 20%] Built target demo_dox_align_gaps_example +[ 20%] Built target demo_dox_align_align +[ 20%] Built target test_stream +[ 20%] Built target test_simd_vector_avx2 +[ 20%] Built target test_statistics +[ 20%] Built target demo_dox_align_global_alignment_banded +[ 20%] Built target test_translation +[ 20%] Built target test_rna_io +[ 20%] Built target test_sequence_v2 +[ 20%] Built target test_stringset_v2 +[ 20%] Built target test_sequence +[ 20%] Built target test_store +[ 20%] Built target test_seeds_align_banded_chain_impl +[ 20%] Built target test_ucsc_io +[ 23%] Built target demo_blast_blast_in_lowlevel +[ 23%] Built target test_seeds_global_chaining +[ 20%] Built target test_simple_intervals_io +[ 20%] Built target test_seeds_seed_set_base make -f demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/depend +[ 20%] Built target test_seeds_seed_chained make -f demos/CMakeFiles/demo_dox_basic_enable_if.dir/build.make demos/CMakeFiles/demo_dox_basic_enable_if.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/tabix_io/CMakeFiles/test_tabix_io.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/depend +[ 20%] Built target test_simd_vector +[ 20%] Built target test_seeds_seed_diagonal make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/depend +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_enable_if.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build.make demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/depend +[ 22%] Built target test_simd_vector_sse4 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/depend +make[3]: Nothing to be done for 'tests/vcf_io/CMakeFiles/test_vcf_io.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/seq_io/CMakeFiles/test_seq_io.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 20%] Built target demo_dox_align_compute_alignment_stats +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build.make demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/depend -make -f demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build.make demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/depend +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/DependInfo.cmake "--color=" -[ 22%] Built target test_simd_vector_avx2 +make -f demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build.make demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/depend +make -f demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build.make demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build.make demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/depend +make -f demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build.make demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/DependInfo.cmake "--color=" -[ 22%] Built target test_simple_intervals_io -[ 22%] Built target test_statistics -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/DependInfo.cmake "--color=" -[ 22%] Built target test_store -make -f demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build.make demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/depend -[ 22%] Built target test_seeds_align_banded_chain_impl make -f demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/depend -Dependencies file "tests/translation/CMakeFiles/test_translation.dir/test_translation.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation/CMakeFiles/test_translation.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_dox_find_finder_index.dir/build.make demos/CMakeFiles/demo_dox_find_finder_index.dir/depend make -f demos/CMakeFiles/demo_dox_find_finder_online.dir/build.make demos/CMakeFiles/demo_dox_find_finder_online.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_gaps_example.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/DependInfo.cmake "--color=" -Dependencies file "tests/translation/CMakeFiles/test_translation.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation/CMakeFiles/test_translation.dir/compiler_depend.internal". -Dependencies file "tests/tabix_io/CMakeFiles/test_tabix_io.dir/test_tabix_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io/CMakeFiles/test_tabix_io.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/build.make demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/DependInfo.cmake "--color=" -[ 22%] Built target test_find_swift -make -f demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_align_gaps_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_gaps_example.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_index.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/build.make 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/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos 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"demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/depend cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 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&& /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target test_tabix_io +make -f demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos 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"/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_integrate_align.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/dox/align_extend/extend_alignment.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/compiler_depend.internal". make[3]: 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file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_basic_enable_if.dir/dox/basic/enable_if.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_enable_if.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/DependInfo.cmake "--color=" +[ 24%] Built target test_vcf_io Dependencies file 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"/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/depend +make -f demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build.make 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_basic_metaprogramming_switch -Dependencies file "demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_align_extend_extend_alignment -make -f demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/build.make demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/build -Consolidate compiler generated dependencies of target demo_dox_basic_metaprogramming_math -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/dox/graph_algorithms/all_pairs_shortest_path.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_align_align.dir/build.make demos/CMakeFiles/demo_dox_align_align.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/dox/gff_io/UNUSED_gff_stream_read.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_dox_find_finder_index +Consolidate compiler generated dependencies of target demo_dox_bed_io_UNUSED_bed_stream_read Consolidate compiler generated dependencies of target demo_dox_basic_simple_type_construction -Dependencies file "demos/CMakeFiles/demo_dox_find_finder_online.dir/dox/find/finder_online.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_online.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build +Consolidate compiler generated dependencies of target demo_dox_basic_metaprogramming_math Consolidate compiler generated dependencies of target demo_dox_align_profile_profile_seq_score -Dependencies file "demos/CMakeFiles/demo_dox_find_finder_index.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_index.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_dox_bam_io_bam_tags_dict +Consolidate compiler generated dependencies of target demo_dox_align_extend_extend_alignment +Consolidate compiler generated dependencies of target demo_dox_arg_parse_argument_parser +Consolidate compiler generated dependencies of target demo_dox_align_profile_profile_seq_frac_score make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/tabix_io/CMakeFiles/test_tabix_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_bam_io_bam_file_in -Dependencies file "demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/compiler_depend.internal". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/dox/graph_algorithms/bellman_ford_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_align_integrate_align.dir/build.make demos/CMakeFiles/demo_dox_align_integrate_align.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_bed_io_UNUSED_bed_stream_read -make -f demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/dox/graph_algorithms/breadth_first_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_basic_zip_iterator -Consolidate compiler generated dependencies of target demo_dox_bam_io_bam_tags_dict -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build'. +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_find_finder_online.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_online.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/vcf_io/CMakeFiles/test_vcf_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_align_profile_profile_seq_frac_score -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/dox/graph_algorithms/dag_shortest_path.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/build.make demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/dox/graph_algorithms/depth_first_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/build.make demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build -make -f demos/CMakeFiles/demo_dox_basic_enable_if.dir/build.make demos/CMakeFiles/demo_dox_basic_enable_if.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/compiler_depend.internal". -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/build.make demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_gaps_example.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build +make -f demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build -Consolidate compiler generated dependencies of target demo_dox_gff_io_UNUSED_gff_stream_read -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_all_pairs_shortest_path -make -f demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build.make demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/dox/graph_algorithms/floyd_warshall_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build.make demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build -make -f demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build.make demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_consensus_consensus_alignment -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build'. +make -f demos/CMakeFiles/demo_dox_align_integrate_align.dir/build.make demos/CMakeFiles/demo_dox_align_integrate_align.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_enable_if.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/build -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_bellman_ford_algorithm -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_find_finder_aho_corasick -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/build.make demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/build'. -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build'. -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_align.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_find_finder_index +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/build.make demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/build +make -f demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build +make -f demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/build.make demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/build +make -f demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build +make -f demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/build.make demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/build +make -f demos/CMakeFiles/demo_dox_basic_enable_if.dir/build.make demos/CMakeFiles/demo_dox_basic_enable_if.dir/build +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build +make -f demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build.make demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build +make -f demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build.make demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build +make -f demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build.make demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build make -f demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build.make demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build -Consolidate compiler generated dependencies of target demo_dox_find_finder_online -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_breadth_first_search -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_depth_first_search +make -f demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build +make -f demos/CMakeFiles/demo_dox_find_finder_index.dir/build.make demos/CMakeFiles/demo_dox_find_finder_index.dir/build +make -f demos/CMakeFiles/demo_dox_find_finder_online.dir/build.make demos/CMakeFiles/demo_dox_find_finder_online.dir/build +make -f demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/build +make -f demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/build +make -f demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/build +make -f demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/build +make -f demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/build +make -f demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build +make -f demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/build +make -f demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build +make -f demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build.make demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build +make -f demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/build +Consolidate compiler generated dependencies of target demo_dox_index_UNUSED_shape +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_prims_algorithm +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_dijkstra +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_kruskals_algorithm +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_floyd_warshall_algorithm +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_dag_shortest_path +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_strongly_connected_components +Consolidate compiler generated dependencies of target demo_dox_gff_io_UNUSED_gff_stream_read +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_transitive_closure +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_heaviest_increasing_subsequence make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_enable_if.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_dag_shortest_path make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_integrate_align.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build'. +make -f demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_find_finder_index.dir/build.make demos/CMakeFiles/demo_dox_find_finder_index.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/build -make -f demos/CMakeFiles/demo_dox_find_finder_online.dir/build.make demos/CMakeFiles/demo_dox_find_finder_online.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/build.make demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/build -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_dijkstra make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_floyd_warshall_algorithm make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/dox/graph_algorithms/kruskals_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_find_finder_online.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build +make -f demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build +make -f demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_integrate_align.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_find_finder_index.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_find_finder_index.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_find_finder_online.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_ford_fulkerson_algorithm -[ 22%] Built target test_ucsc_io +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_heaviest_increasing_subsequence make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/build -[ 23%] Built target test_tabix_io -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_kruskals_algorithm -[ 23%] Built target test_translation +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build -[ 23%] Built target test_vcf_io make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 23%] Built target demo_dox_align_compute_alignment_stats -make -f demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build -[ 23%] Built target demo_dox_align_gaps_example -[ 23%] Built target demo_dox_align_align -[ 24%] Built target demo_blast_blast_in_lowlevel -[ 24%] Built target demo_dox_align_global_alignment_banded make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 25%] Built target demo_dox_align_global_alignment_unbanded -[ 25%] Built target demo_dox_basic_metaprogramming_logic -[ 25%] Built target demo_dox_align_split_split_alignment -[ 25%] Built target demo_dox_align_integrate_align -[ 25%] Built target demo_dox_align_profile_profile_seq_frac_score -[ 25%] Built target demo_dox_align_profile_profile_seq_score make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 25%] Built target demo_dox_arg_parse_argument_parser -[ 25%] Built target demo_dox_align_extend_extend_alignment -[ 25%] Built target demo_dox_basic_metaprogramming_switch -[ 25%] Built target demo_dox_bam_io_bam_file_in -make -f demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/depend -[ 25%] Built target demo_dox_basic_metaprogramming_control -make -f demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/depend -make -f demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/depend -[ 25%] Built target demo_dox_basic_enable_if -make -f demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build.make demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 25%] Built target demo_dox_basic_metaprogramming_math -make -f demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/depend -[ 26%] Built target demo_dox_basic_simple_type_construction -make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/depend +[ 25%] Built target demo_dox_align_integrate_align +[ 25%] Built target demo_dox_basic_metaprogramming_control +[ 25%] Built target demo_dox_align_extend_extend_alignment +[ 25%] Built target demo_dox_align_profile_profile_seq_score make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/depend -[ 26%] Built target demo_dox_bed_io_UNUSED_bed_stream_read -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/DependInfo.cmake "--color=" +[ 25%] Built target demo_dox_basic_enable_if +Consolidate compiler generated dependencies of target demo_dox_bam_io_bam_file_in make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/depend -[ 26%] Built target demo_dox_basic_zip_iterator -[ 26%] Built target demo_dox_consensus_consensus_alignment -[ 26%] Built target demo_dox_graph_algorithms_all_pairs_shortest_path make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/depend +[ 26%] Built target demo_dox_graph_algorithms_transitive_closure +[ 31%] Built target demo_dox_graph_algorithms_longest_increasing_subsequence +[ 26%] Built target demo_dox_index_UNUSED_shape +[ 26%] Built target demo_dox_find_finder_index +[ 26%] Built target demo_dox_graph_algorithms_all_pairs_shortest_path +[ 26%] Built target demo_dox_graph_align_graph_align +[ 26%] Built target demo_dox_basic_metaprogramming_switch +[ 26%] Built target demo_dox_align_profile_profile_seq_frac_score +[ 26%] Built target demo_dox_gff_io_UNUSED_gff_stream_read +[ 26%] Built target demo_dox_graph_algorithms_breadth_first_search +[ 26%] Built target demo_dox_graph_algorithms_dijkstra +[ 26%] Built target demo_dox_bed_io_UNUSED_bed_stream_read +[ 26%] Built target demo_dox_align_split_split_alignment +[ 26%] Built target demo_dox_basic_metaprogramming_logic +[ 26%] Built target demo_dox_graph_algorithms_bellman_ford_algorithm +[ 26%] Built target demo_dox_graph_algorithms_prims_algorithm +[ 26%] Built target demo_dox_find_finder_aho_corasick +[ 26%] Built target demo_dox_graph_algorithms_ford_fulkerson_algorithm +[ 26%] Built target demo_dox_consensus_consensus_alignment +[ 26%] Built target demo_dox_graph_algorithms_strongly_connected_components +[ 26%] Built target demo_dox_graph_algorithms_dag_shortest_path +[ 26%] Built target demo_dox_graph_algorithms_topological_sort +[ 26%] Built target demo_dox_graph_algorithms_floyd_warshall_algorithm +[ 26%] Built target demo_dox_graph_algorithms_kruskals_algorithm +[ 26%] Built target demo_dox_graph_algorithms_longest_common_subsequence +[ 31%] Built target demo_dox_bam_io_bam_tags_dict +[ 26%] Built target demo_dox_basic_zip_iterator +[ 31%] Built target demo_dox_graph_algorithms_depth_first_search +[ 31%] Built target demo_dox_find_finder_online +[ 31%] Built target demo_dox_graph_types_graph_algo_dijkstra make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/DependInfo.cmake "--color=" -[ 27%] Built target demo_dox_bam_io_bam_tags_dict -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/DependInfo.cmake "--color=" -[ 27%] Built target demo_dox_graph_algorithms_bellman_ford_algorithm -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/depend cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/depend -[ 27%] Built target demo_dox_find_finder_aho_corasick -[ 27%] Built target demo_dox_gff_io_UNUSED_gff_stream_read -[ 27%] Built target demo_dox_find_finder_index +[ 26%] Built target demo_dox_graph_algorithms_heaviest_increasing_subsequence +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 31%] Built target demo_dox_basic_simple_type_construction +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build make -f demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build.make demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/depend make -f demos/CMakeFiles/demo_dox_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/depend -[ 27%] Built target demo_dox_graph_algorithms_breadth_first_search make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_index_find_repeats.dir/build.make demos/CMakeFiles/demo_dox_index_find_repeats.dir/depend +make -f demos/CMakeFiles/demo_dox_index_finder.dir/build.make demos/CMakeFiles/demo_dox_index_finder.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_index_finder.dir/build.make demos/CMakeFiles/demo_dox_index_finder.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_counting.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/DependInfo.cmake "--color=" -[ 27%] Built target demo_dox_graph_algorithms_dag_shortest_path -[ 28%] Built target demo_dox_find_finder_online -make -f demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/build.make demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_find_repeats.dir/DependInfo.cmake "--color=" -[ 28%] Built target demo_dox_graph_algorithms_dijkstra +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_finder.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/dox/index/UNUSED_shape_hash_next.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_find_repeats.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_counting.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_finder.dir/compiler_depend.internal". +[ 31%] Built target demo_dox_arg_parse_argument_parser +Dependencies file "demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_counting.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_counting.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_finder.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_finder.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/build.make demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_index_find_repeats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_find_repeats.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_dox_index_iterator.dir/build.make demos/CMakeFiles/demo_dox_index_iterator.dir/depend make -f demos/CMakeFiles/demo_dox_index_iterator_short.dir/build.make demos/CMakeFiles/demo_dox_index_iterator_short.dir/depend -[ 29%] Built target demo_dox_graph_algorithms_depth_first_search make -f demos/CMakeFiles/demo_dox_index_length_countSequences.dir/build.make demos/CMakeFiles/demo_dox_index_length_countSequences.dir/depend -[ 29%] Built target demo_dox_graph_algorithms_ford_fulkerson_algorithm -make -f demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_maxrepeats.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_finder.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_index_mummy.dir/build.make demos/CMakeFiles/demo_dox_index_mummy.dir/depend +make -f demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_maxrepeats.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator.dir/DependInfo.cmake "--color=" -[ 29%] Built target demo_dox_graph_algorithms_heaviest_increasing_subsequence -make -f demos/CMakeFiles/demo_dox_index_mums.dir/build.make demos/CMakeFiles/demo_dox_index_mums.dir/depend +make -f demos/CMakeFiles/demo_dox_index_mummy.dir/build.make demos/CMakeFiles/demo_dox_index_mummy.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator_short.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_index_mums.dir/build.make demos/CMakeFiles/demo_dox_index_mums.dir/depend +make -f demos/CMakeFiles/demo_dox_index_node_predicate.dir/build.make demos/CMakeFiles/demo_dox_index_node_predicate.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_length_countSequences.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_index_node_predicate.dir/build.make demos/CMakeFiles/demo_dox_index_node_predicate.dir/depend +make -f demos/CMakeFiles/demo_dox_index_open_save.dir/build.make demos/CMakeFiles/demo_dox_index_open_save.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_maxrepeats.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_index_open_save.dir/build.make demos/CMakeFiles/demo_dox_index_open_save.dir/depend -make -f demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build.make demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mummy.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/dox/graph_algorithms/longest_common_subsequence.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build.make demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/depend +make -f demos/CMakeFiles/demo_dox_index_sufarray.dir/build.make demos/CMakeFiles/demo_dox_index_sufarray.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mums.dir/DependInfo.cmake "--color=" -[ 29%] Built target demo_dox_graph_algorithms_floyd_warshall_algorithm make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_node_predicate.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/depend +make -f demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/build.make demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_open_save.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/compiler_depend.internal". -[ 29%] Built target demo_dox_graph_algorithms_kruskals_algorithm -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/dox/graph_algorithms/longest_increasing_subsequence.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_index_sufarray.dir/build.make demos/CMakeFiles/demo_dox_index_sufarray.dir/depend -make -f demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/dox/graph_algorithms/prims_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/dox/graph_algorithms/transitive_closure.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/build.make demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/build.make demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_sufarray.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build.make demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/depend +make -f demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/build.make demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/build.make demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/dox/graph_types/graph_algo_dijkstra.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/dox/index/UNUSED_shape.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build.make demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/dox/graph_align/graph_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/dox/graph_algorithms/strongly_connected_components.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_longest_common_subsequence -make -f demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/build.make demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/build.make demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/build.make demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/build.make demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_topological_sort make -f demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/build.make demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/depend -make -f demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_longest_increasing_subsequence make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_transitive_closure -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string.dir/depend +make -f demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/dox/index/UNUSED_shape_hash_next.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_prims_algorithm -make -f demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_graph_types_graph_algo_dijkstra -Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_strongly_connected_components -Dependencies file "demos/CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_counting.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_find_repeats.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_index_UNUSED_shape -Dependencies file "demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/depend -make -f demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/build -Consolidate compiler generated dependencies of target demo_dox_graph_align_graph_align -make -f demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_finder.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/depend make -f demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_queue_example.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_index_counting.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_counting.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/dox/index/getOccurrences_getFrequency_range_getFibre.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_length_countSequences.dir/dox/index/length_countSequences.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_length_countSequences.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_index_find_repeats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_find_repeats.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_index_iterator.dir/dox/index/iterator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build.make demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_score_score.dir/build.make demos/CMakeFiles/demo_dox_score_score.dir/depend cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_queue_example.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_index_finder.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_finder.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_score_score.dir/DependInfo.cmake "--color=" +[ 31%] Built target demo_dox_bam_io_bam_file_in +make -f demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/dox/index/getOccurrences_getFrequency_range_getFibre.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/depend +make -f demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build.make demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/depend +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/depend Dependencies file "demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_index_mums.dir/dox/index/mums.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mums.dir/compiler_depend.internal". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_queue_example.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_index_length_countSequences.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_length_countSequences.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_iterator_short.dir/dox/index/iterator_short.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator_short.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_index_node_predicate.dir/dox/index/node_predicate.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_node_predicate.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_maxrepeats.dir/dox/index/maxrepeats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_maxrepeats.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_mummy.dir/dox/index/mummy.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mummy.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_open_save.dir/dox/index/open_save.cpp.o.d" is newer than depends file 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"/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_maxrepeats.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_iterator_short.dir/dox/index/iterator_short.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator_short.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_index_mums.dir/dox/index/mums.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mums.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/dox/index/supermaxrepeats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/compiler_depend.internal". -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_index_open_save.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_open_save.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_mummy.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mummy.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_index_UNUSED_shape_hash_next -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build.make demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build -make -f demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_index_sufarray.dir/dox/index/sufarray.cpp.o.d" is newer than depends file 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/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg 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dependencies of target demo_dox_index_shape_hash_init +Consolidate compiler generated dependencies of target demo_dox_modifier_cyclic_shape_snippets +Consolidate compiler generated dependencies of target demo_dox_index_maxrepeats +Consolidate compiler generated dependencies of target demo_dox_index_begin_atEnd_representative +Consolidate compiler generated dependencies of target demo_dox_misc_interval_tree_example +Consolidate compiler generated dependencies of target demo_dox_sequence_UNUSED_prefix Consolidate compiler generated dependencies of target demo_dox_index_length_countSequences +Consolidate compiler generated dependencies of target demo_dox_index_mummy +Consolidate compiler generated dependencies of target demo_dox_index_begin_range_goDown_representative_repLength +Consolidate compiler generated dependencies of target demo_dox_index_mums +Consolidate compiler generated dependencies of target demo_dox_seeds_seeds_add_seed +Consolidate compiler generated dependencies of target 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_index_open_save -Consolidate compiler generated dependencies of target demo_dox_index_node_predicate make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build -Consolidate compiler generated dependencies of target demo_dox_index_supermaxrepeats -Consolidate compiler generated dependencies of target demo_dox_index_maxrepeats +make -f demos/CMakeFiles/demo_dox_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build'. -make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_misc_enumerate_strings +make -f demos/CMakeFiles/demo_dox_index_finder.dir/build.make demos/CMakeFiles/demo_dox_index_finder.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_misc_interval_tree_example -Consolidate compiler generated dependencies of target demo_dox_misc_name_store_cache -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build.make demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_index_sufarray -Consolidate compiler generated dependencies of target demo_dox_index_mummy -make -f demos/CMakeFiles/demo_dox_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/build -Consolidate compiler generated dependencies of target demo_dox_modifier_cyclic_shape_snippets make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_find_repeats.dir/build.make demos/CMakeFiles/demo_dox_index_find_repeats.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_modifier_modified_string.dir/dox/modifier/modified_string.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/dox/modifier/modified_string_nested.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_finder.dir/build.make demos/CMakeFiles/demo_dox_index_finder.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/build.make demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/build -Consolidate compiler generated dependencies of target demo_dox_index_textAt_indexText_saAt_indexRequire -Dependencies file "demos/CMakeFiles/demo_dox_parallel_queue_example.dir/dox/parallel/queue_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_queue_example.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_modifier_cyclic_shape make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_parallel_queue_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_queue_example.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_modifier_modified_string.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_index_iterator.dir/build.make demos/CMakeFiles/demo_dox_index_iterator.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_iterator_short.dir/build.make demos/CMakeFiles/demo_dox_index_iterator_short.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_length_countSequences.dir/build.make demos/CMakeFiles/demo_dox_index_length_countSequences.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build +make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build +make -f demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/build.make demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/build +make -f demos/CMakeFiles/demo_dox_index_iterator.dir/build.make demos/CMakeFiles/demo_dox_index_iterator.dir/build +make -f demos/CMakeFiles/demo_dox_index_iterator_short.dir/build.make demos/CMakeFiles/demo_dox_index_iterator_short.dir/build make -f demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build make -f demos/CMakeFiles/demo_dox_index_mummy.dir/build.make demos/CMakeFiles/demo_dox_index_mummy.dir/build make -f demos/CMakeFiles/demo_dox_index_mums.dir/build.make demos/CMakeFiles/demo_dox_index_mums.dir/build make -f demos/CMakeFiles/demo_dox_index_node_predicate.dir/build.make demos/CMakeFiles/demo_dox_index_node_predicate.dir/build make -f demos/CMakeFiles/demo_dox_index_open_save.dir/build.make demos/CMakeFiles/demo_dox_index_open_save.dir/build -Consolidate compiler generated dependencies of target demo_dox_parallel_queue_example -Consolidate compiler generated dependencies of target demo_dox_modifier_modified_string_nested -[ 29%] Built target demo_dox_graph_algorithms_longest_common_subsequence -make -f demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build.make demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_counting.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_modifier_modified_string_mod_view -make -f demos/CMakeFiles/demo_dox_index_sufarray.dir/build.make demos/CMakeFiles/demo_dox_index_sufarray.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/compiler_depend.internal". -[ 29%] Built target demo_dox_graph_algorithms_topological_sort +make -f demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build.make demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build make -f demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/build.make demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/build -Consolidate compiler generated dependencies of target demo_dox_modifier_modified_string +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_length_countSequences.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/build.make demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_finder.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build.make demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build make -f demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/build.make demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/build make -f demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/build.make demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/build'. -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_iterator.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/build.make demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/build make -f demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/build.make demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_length_countSequences.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_find_repeats.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_finder.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build +make -f demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_iterator.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_mummy.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_iterator_short.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Built target demo_dox_graph_algorithms_transitive_closure make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build'. +make -f demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build -Consolidate compiler generated dependencies of target demo_dox_parallel_splitter_example -make -f demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build +make -f demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build.make demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build +make -f demos/CMakeFiles/demo_dox_score_score.dir/build.make demos/CMakeFiles/demo_dox_score_score.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_iterator_short.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_mums.dir/build'. make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_mums.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_mummy.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build +make -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 30%] Built target demo_dox_graph_algorithms_longest_increasing_subsequence -make -f demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_node_predicate.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build +make -f demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_open_save.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build.make demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_node_predicate.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_open_save.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_sufarray.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 30%] Built target demo_dox_graph_algorithms_prims_algorithm -[ 30%] Built target demo_dox_graph_align_graph_align -make -f demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build.make demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/depend -[ 31%] Built target demo_dox_graph_types_graph_algo_dijkstra -[ 31%] Built target demo_dox_graph_algorithms_strongly_connected_components -[ 31%] Built target demo_dox_index_begin_atEnd_representative -make -f demos/CMakeFiles/demo_dox_score_score.dir/build.make demos/CMakeFiles/demo_dox_score_score.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/DependInfo.cmake "--color=" -[ 31%] Built target demo_dox_index_UNUSED_shape_hash_next -make -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/depend -[ 31%] Built target demo_dox_index_UNUSED_shape_hash -[ 32%] Built target demo_dox_index_iterator_short -[ 32%] Built target demo_dox_index_UNUSED_shape -make -f demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/depend -make -f demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_score_score.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_score_score.dir/DependInfo.cmake "--color=" -[ 32%] Built target demo_dox_index_counting -make -f demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build.make demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/depend -[ 34%] Built target demo_dox_index_begin_range_goDown_representative_repLength -make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/depend -[ 34%] Built target demo_dox_index_length_countSequences -[ 34%] Built target demo_dox_index_begin_atEnd_representative_bottomUp +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/DependInfo.cmake "--color=" -[ 34%] Built target demo_dox_index_getOccurrences_getFrequency_range_getFibre -[ 34%] Built target demo_dox_index_find_repeats +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/depend -[ 34%] Built target demo_dox_index_finder +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 31%] Built target demo_dox_index_counting +[ 31%] Built target demo_dox_index_length_countSequences +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/depend +[ 31%] Built target demo_dox_index_getOccurrences_getFrequency_range_getFibre +[ 31%] Built target demo_dox_index_begin_atEnd_representative_bottomUp make -f demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build.make demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/depend -[ 34%] Built target demo_dox_index_iterator -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_sequence_segment.dir/build.make demos/CMakeFiles/demo_dox_sequence_segment.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/DependInfo.cmake "--color=" +[ 31%] Built target demo_dox_index_maxrepeats make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_sequence_string.dir/build.make demos/CMakeFiles/demo_dox_sequence_string.dir/depend +make -f demos/CMakeFiles/demo_dox_sequence_segment.dir/build.make demos/CMakeFiles/demo_dox_sequence_segment.dir/depend +[ 34%] Built target demo_dox_index_mummy +[ 34%] Built target demo_dox_index_UNUSED_shape_hash_next +[ 34%] Built target demo_dox_index_begin_range_goDown_representative_repLength +[ 34%] Built target demo_dox_index_finder +[ 34%] Built target demo_dox_index_iterator_short make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_sequence_string.dir/build.make demos/CMakeFiles/demo_dox_sequence_string.dir/depend +[ 34%] Built target demo_dox_index_mums +[ 34%] Built target demo_dox_index_begin_atEnd_representative +[ 34%] Built target demo_dox_index_iterator +[ 34%] Built target demo_dox_index_supermaxrepeats make -f demos/CMakeFiles/demo_dox_sequence_string2.dir/build.make demos/CMakeFiles/demo_dox_sequence_string2.dir/depend make -f demos/CMakeFiles/demo_dox_sequence_stringset.dir/build.make demos/CMakeFiles/demo_dox_sequence_stringset.dir/depend -[ 34%] Built target demo_dox_index_maxrepeats -[ 34%] Built target demo_dox_index_mummy -[ 34%] Built target demo_dox_index_mums -make -f demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_segment.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/depend -[ 34%] Built target demo_dox_index_supermaxrepeats -[ 34%] Built target demo_dox_index_node_predicate +make -f demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_store_store_example.dir/build.make demos/CMakeFiles/demo_dox_store_store_example.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string2.dir/DependInfo.cmake "--color=" -[ 34%] Built target demo_dox_index_open_save -[ 35%] Built target demo_dox_index_shape_hash_init -make -f demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build.make demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_stringset.dir/DependInfo.cmake "--color=" +[ 34%] Built target demo_dox_index_node_predicate +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string2.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/DependInfo.cmake "--color=" -[ 35%] Built target demo_dox_index_sufarray +make -f demos/CMakeFiles/demo_dox_store_store_example.dir/build.make demos/CMakeFiles/demo_dox_store_store_example.dir/depend +[ 34%] Built target demo_dox_index_open_save +[ 34%] Built target demo_dox_index_textAt_indexText_saAt_indexRequire +[ 34%] Built target demo_dox_misc_enumerate_strings +make -f demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build.make demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/depend +[ 34%] Built target demo_dox_misc_get_terminal_size +make -f demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build.make demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/depend +[ 35%] Built target demo_dox_index_shape_hash_init +[ 35%] Built target demo_dox_misc_name_store_cache +[ 35%] Built target demo_dox_modifier_cyclic_shape +make -f demos/CMakeFiles/demo_howto_custom_file_endings.dir/build.make demos/CMakeFiles/demo_howto_custom_file_endings.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/DependInfo.cmake "--color=" -[ 35%] Built target demo_dox_index_textAt_indexText_saAt_indexRequire -[ 35%] Built target demo_dox_misc_get_terminal_size +make -f demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/build.make demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_store_store_example.dir/DependInfo.cmake "--color=" -[ 35%] Built target demo_dox_modifier_cyclic_shape_snippets -[ 35%] Built target demo_dox_misc_name_store_cache make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build.make demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/depend -[ 35%] Built target demo_dox_misc_enumerate_strings -make -f demos/CMakeFiles/demo_howto_custom_file_endings.dir/build.make demos/CMakeFiles/demo_howto_custom_file_endings.dir/depend -[ 35%] Built target demo_dox_modifier_cyclic_shape -[ 36%] Built target demo_dox_misc_interval_tree_example -[ 36%] Built target demo_dox_modifier_modified_string -make -f demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/build.make demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/depend make -f demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build.make demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/depend -[ 36%] Built target demo_dox_modifier_modified_string_mod_view +[ 35%] Built target demo_dox_modifier_cyclic_shape_snippets make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_howto_scores_init_score.dir/build.make demos/CMakeFiles/demo_howto_scores_init_score.dir/depend -[ 37%] Built target demo_dox_modifier_modified_string_nested +[ 35%] Built target demo_dox_modifier_modified_string_mod_view +[ 35%] Built target demo_dox_modifier_modified_string +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_howto_scores_load_score.dir/build.make demos/CMakeFiles/demo_howto_scores_load_score.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_custom_file_endings.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build.make demos/CMakeFiles/demo_howto_using_zip_iterator.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_custom_file_endings.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/DependInfo.cmake "--color=" -[ 37%] Built target demo_dox_parallel_queue_example +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_load_score.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_init_score.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/dox/sequence/UNUSED_suffix.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_sequence_segment.dir/dox/sequence/segment.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_segment.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/dox/sequence/container_view_zip.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/dox/statistics/build_markov_model.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/compiler_depend.internal". 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"/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/howto/efficiently_import_sequences.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_howto_custom_file_endings.dir/howto/custom_file_endings.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_custom_file_endings.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_stringset.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/howto/filter_similar_sequences.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_sequence_string2.dir/dox/sequence/string2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_howto_scores_load_score.dir/howto/scores/load_score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_load_score.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_howto_scores_init_score.dir/howto/scores/init_score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_init_score.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build.make demos/CMakeFiles/demo_howto_using_zip_iterator.dir/depend +Consolidate compiler generated dependencies of target demo_dox_index_UNUSED_shape_hash +Consolidate compiler generated dependencies of target demo_dox_seeds_seeds_extension make -f demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build.make demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/depend -[ 37%] Built target demo_dox_parallel_splitter_example +Dependencies file "demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/compiler_depend.internal". +Dependencies file 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"demos/CMakeFiles/demo_dox_sequence_stringset.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_stringset.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_load_score.dir/DependInfo.cmake "--color=" -make -f 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/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/dox/pipe/pool_sorter.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_score_score.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/depend -make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/depend -make -f demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_score_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_score_score.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/depend +make -f demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/dox/seeds/seeds_extension.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_sequence_segment.dir/dox/sequence/segment.cpp.o.d" is newer than depends file 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/dox/seq_io/fai_index_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 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/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/depend +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_sequence_stringset.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_stringset.dir/compiler_depend.internal". -Dependencies file 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/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_pipe_pool_sorter +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/depend +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd 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compiler generated dependencies of target demo_dox_sequence_UNUSED_suffix +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_basic_code_detailed +Consolidate compiler generated dependencies of target demo_dox_sequence_string +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_basic_code +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_example_tags_for_print +Consolidate compiler generated dependencies of target demo_dox_sequence_container_view_zip +Consolidate compiler generated dependencies of target demo_howto_using_zip_iterator +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_base +Consolidate compiler generated dependencies of target demo_howto_efficiently_import_sequences +Consolidate compiler generated dependencies of target demo_howto_scores_init_score +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_2 +Consolidate compiler generated dependencies of target demo_dox_store_store_example +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_3 +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_code_encapsulation +Consolidate compiler generated dependencies of target demo_tutorial_alignment_graph Consolidate compiler generated dependencies of target demo_dox_sequence_segment -Dependencies file "demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_sequence_UNUSED_infix +Consolidate compiler generated dependencies of target demo_howto_filter_similar_sequences +Consolidate compiler generated dependencies of target 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demos/CMakeFiles/demo_tutorial_alignment_align.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_align.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_sequence_segment.dir/build.make demos/CMakeFiles/demo_dox_sequence_segment.dir/build -make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build -Dependencies file "demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/howto/filter_similar_sequences.cpp.o.d" is newer than depends file 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Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_sequence_container_view_zip -Dependencies file "demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_howto_scores_load_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_load_score.dir/compiler_depend.internal". make[3]: Leaving directory 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demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build.make demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/tutorial/a_first_example/basic_code.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_stream_lexical_cast -make -f demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory 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-make -f demos/CMakeFiles/demo_dox_sequence_string2.dir/build.make demos/CMakeFiles/demo_dox_sequence_string2.dir/build -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/tutorial/a_first_example/example_tempSubclassing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/compiler_depend.internal". -Dependencies file 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demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build -Dependencies file "demos/CMakeFiles/demo_howto_using_zip_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_using_zip_iterator.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_howto_align_gaps_clipping -make -f demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build.make demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build -Consolidate compiler generated dependencies of target demo_howto_scores_init_score -Consolidate compiler generated dependencies of target demo_tabix_io_tabix_vcf -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 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is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build'. +make -f demos/CMakeFiles/demo_dox_sequence_string2.dir/build.make demos/CMakeFiles/demo_dox_sequence_string2.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build.make demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build -Consolidate 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directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build +make -f demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build.make demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build +make -f demos/CMakeFiles/demo_dox_sequence_segment.dir/build.make demos/CMakeFiles/demo_dox_sequence_segment.dir/build +make -f demos/CMakeFiles/demo_dox_sequence_stringset.dir/build.make demos/CMakeFiles/demo_dox_sequence_stringset.dir/build +make -f demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build +make -f demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build +make -f 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demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/build +make -f demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/build +make -f demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_alignment_scoring_scheme_matrix +Consolidate compiler generated dependencies of target demo_tutorial_alignment_scoring_scheme_affine_dgs +Consolidate compiler generated dependencies of target demo_tutorial_alignment_graph_assignment1 +Consolidate compiler generated dependencies of target demo_tutorial_alignment_scoring_scheme_simple make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_string.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_stringset.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_final_result -Dependencies file "demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_string2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: 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"/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_align.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_example_tags_for_print -Consolidate compiler generated dependencies of target demo_howto_using_zip_iterator +make -f demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/build +make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_string2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/tutorial/a_first_example/solution_6.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_store_store_example.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/build'. make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_scores_load_score.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_code_encapsulation make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_howto_custom_file_endings.dir/build.make demos/CMakeFiles/demo_howto_custom_file_endings.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_4 -make -f demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build.make demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_3 -make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/build -make -f demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_4_templateSubclassing -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_1 -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_5 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_scores_init_score.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build'. -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_stringset.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_scores_load_score.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/build -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_alignment_align -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_6 -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/tutorial/a_first_example/solution_2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build'. -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_align.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_scores_init_score.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_howto_efficiently_import_sequences -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/build +make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_custom_file_endings.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_alignment_align.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_align.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_segment.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_store_store_example.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 37%] Built target demo_dox_score_score +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 37%] Built target demo_dox_pipe_pool_sorter -make -f demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/build.make demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 37%] Built target demo_dox_sequence_UNUSED_prefix make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 38%] Built target demo_dox_sequence_segment make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 38%] Built target demo_dox_seeds_seeds_add_seed -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 38%] Built target demo_dox_sequence_UNUSED_infix make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 38%] Built target demo_dox_seeds_seeds_extension -[ 39%] Built target demo_dox_seeds_seeds_chaining -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build -[ 39%] Built target demo_dox_seq_io_fai_index_example -[ 39%] Built target demo_dox_sequence_string2 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_align.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 39%] Built target demo_dox_sequence_UNUSED_suffix -[ 39%] Built target demo_dox_sequence_string -[ 39%] Built target demo_dox_sequence_container_view_zip -[ 39%] Built target demo_dox_sequence_stringset make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/depend -make -f demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph.dir/depend -[ 39%] Built target demo_dox_stream_lexical_cast make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/depend -[ 39%] Built target demo_dox_statistics_load_markov_model -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/DependInfo.cmake "--color=" -[ 40%] Built target demo_dox_store_store_example -make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph.dir/DependInfo.cmake "--color=" -[ 40%] Built target demo_dox_statistics_build_markov_model -make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/depend -make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/DependInfo.cmake "--color=" +[ 38%] Built target demo_tutorial_a_first_example_example_tags +[ 38%] Built target demo_tutorial_a_first_example_example_tempSubclassing +[ 38%] Built target demo_dox_sequence_string2 +[ 38%] Built target demo_dox_sequence_UNUSED_suffix +[ 38%] Built target demo_dox_sequence_stringset +[ 38%] Built target demo_dox_sequence_container_view_zip +[ 38%] Built target demo_dox_sequence_string make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/depend -[ 41%] Built target demo_howto_scores_init_score make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/DependInfo.cmake "--color=" -[ 41%] Built target demo_howto_using_zip_iterator -[ 41%] Built target demo_tabix_io_tabix_vcf -[ 41%] Built target demo_tutorial_a_first_example_example_tags make -f demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/DependInfo.cmake "--color=" -[ 41%] Built target demo_tutorial_a_first_example_example_tempSubclassing +make -f demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/depend +[ 39%] Built target demo_tutorial_alignment_scoring_scheme_affine_dgs +[ 43%] Built target demo_dox_store_store_example +make -f demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build.make demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/depend +[ 39%] Built target demo_tutorial_a_first_example_solution_6 +[ 39%] Built target demo_tutorial_alignment_align_assignment1 +[ 39%] Built target demo_howto_align_gaps_clipping +[ 39%] Built target demo_howto_custom_file_endings +[ 39%] Built target demo_tabix_io_tabix_vcf +[ 39%] Built target demo_tutorial_a_first_example_solution_4_templateSubclassing +[ 39%] Built target demo_tutorial_a_first_example_solution_5 +[ 44%] Built target demo_dox_sequence_segment +[ 39%] Built target demo_tutorial_a_first_example_example_tags_for_print +[ 39%] Built target demo_dox_statistics_load_markov_model +[ 39%] Built target demo_tutorial_a_first_example_basic_code +[ 39%] Built target demo_tutorial_a_first_example_solution_4 +[ 39%] Built target demo_tutorial_alignment_scoring_scheme_matrix +[ 39%] Built target demo_howto_efficiently_import_sequences +[ 39%] Built target demo_tutorial_alignment_graph_assignment1 +[ 39%] Built target demo_howto_using_zip_iterator +[ 39%] Built target demo_howto_filter_similar_sequences +[ 44%] Built target demo_howto_scores_init_score make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/DependInfo.cmake "--color=" -[ 41%] Built target demo_tutorial_a_first_example_basic_code -[ 41%] Built target demo_howto_filter_similar_sequences -[ 41%] Built target demo_howto_align_gaps_clipping -make -f demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build.make demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/depend +[ 39%] Built target demo_dox_stream_lexical_cast +[ 44%] Built target demo_tutorial_alignment_scoring_scheme_simple +make -f demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/build.make demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/build.make demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/depend -[ 42%] Built target demo_tutorial_a_first_example_basic_code_detailed +[ 39%] Built target demo_tutorial_a_first_example_final_result make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build.make demos/CMakeFiles/demo_tutorial_basics_allocator.dir/depend -[ 42%] Built target demo_tutorial_a_first_example_base -[ 42%] Built target demo_howto_scores_load_score -make -f demos/CMakeFiles/demo_tutorial_basics_base.dir/build.make demos/CMakeFiles/demo_tutorial_basics_base.dir/depend +[ 39%] Built target demo_tutorial_a_first_example_solution_1 +[ 39%] Built target demo_howto_scores_load_score +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/DependInfo.cmake "--color=" -[ 42%] Built target demo_howto_custom_file_endings +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 39%] Built target demo_tutorial_a_first_example_solution_3 +make -f demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build.make demos/CMakeFiles/demo_tutorial_basics_allocator.dir/depend +[ 39%] Built target demo_dox_statistics_build_markov_model +[ 39%] Built target demo_tutorial_alignment_graph +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_allocator.dir/DependInfo.cmake "--color=" -[ 42%] Built target demo_tutorial_a_first_example_solution_3 -[ 42%] Built target demo_tutorial_a_first_example_final_result +[ 44%] Built target demo_tutorial_a_first_example_basic_code_detailed +[ 41%] Built target demo_tutorial_alignment_align +make -f demos/CMakeFiles/demo_tutorial_basics_base.dir/build.make demos/CMakeFiles/demo_tutorial_basics_base.dir/depend make -f demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/build.make demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/depend -[ 42%] Built target demo_tutorial_a_first_example_code_encapsulation make -f demos/CMakeFiles/demo_tutorial_basics_strings.dir/build.make demos/CMakeFiles/demo_tutorial_basics_strings.dir/depend make -f demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_base.dir/depend -[ 42%] Built target demo_tutorial_a_first_example_example_tags_for_print -[ 42%] Built target demo_tutorial_a_first_example_solution_4 -make -f demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_base.dir/DependInfo.cmake "--color=" -[ 42%] Built target demo_tutorial_a_first_example_solution_6 +make -f demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/DependInfo.cmake "--color=" -[ 42%] Built target demo_tutorial_a_first_example_solution_1 make -f demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/depend -[ 42%] Built target demo_tutorial_a_first_example_solution_4_templateSubclassing -make -f demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_strings.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_base.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/depend -[ 42%] Built target demo_tutorial_a_first_example_solution_5 -make -f demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_graph.dir/tutorial/alignment/graph.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/depend make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_graph.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/depend -[ 43%] Built target demo_tutorial_alignment_align +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/DependInfo.cmake "--color=" +[ 44%] Built target demo_tutorial_a_first_example_code_encapsulation +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/tutorial/alphabets/assignment_1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/tutorial/alphabets/example_bitsPerValue.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/tutorial/alphabets/example_ordValue.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/tutorial/alphabets/assignment_1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/depend -[ 43%] Built target demo_howto_efficiently_import_sequences +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/tutorial/alphabets/example_size.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/tutorial/alignment/align_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/tutorial/alignment/graph_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/tutorial/alignment/scoring_scheme_matrix.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/tutorial/alphabets/assignment_1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_basics_allocator.dir/tutorial/basics/allocator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_allocator.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_alignment_graph +Dependencies file "demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/tutorial/background_and_motivation/example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_basics_allocator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_allocator.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/compiler_depend.internal". +[ 45%] Built target demo_tutorial_a_first_example_solution_2 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/tutorial/alignment/scoring_scheme_affine_dgs.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/tutorial/basic_techniques/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/depend -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/tutorial/alphabets/assignment_1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/tutorial/alphabets/example_bitsPerValue.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/tutorial/background_and_motivation/example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/depend +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/tutorial/basics/show_alphabets.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_base.dir/tutorial/bed_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/tutorial/alphabets/example_ordValue.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/compiler_depend.internal". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_basics_allocator.dir/tutorial/basics/allocator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_allocator.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_alphabets_assignment_1 -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/depend +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_base.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/tutorial/bed_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/tutorial/basic_techniques/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/tutorial/basics/show_alphabets.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_basics_allocator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_allocator.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/tutorial/alphabets/example_size.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/tutorial/bed_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/depend +[ 45%] Built target demo_tutorial_a_first_example_base make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_basics_base.dir/tutorial/basics/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_base.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_alignment_scoring_scheme_simple -Consolidate compiler generated dependencies of target demo_tutorial_alignment_align_assignment1 -Consolidate compiler generated dependencies of target demo_tutorial_alphabets_example_bitsPerValue -Consolidate compiler generated dependencies of target demo_tutorial_alignment_graph_assignment1 -Dependencies file "demos/CMakeFiles/demo_tutorial_basics_strings.dir/tutorial/basics/strings.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_strings.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_basics_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_base.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_alphabets_assignment_1_solution -Consolidate compiler generated dependencies of target demo_tutorial_alignment_scoring_scheme_matrix -Consolidate compiler generated dependencies of target demo_tutorial_background_and_motivation_example -Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_base.dir/tutorial/bed_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/tutorial/bed_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_basics_strings.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_strings.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_basics_allocator -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/depend Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/tutorial/bed_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/compiler_depend.internal". -[ 44%] Built target demo_tutorial_a_first_example_solution_2 -Consolidate compiler generated dependencies of target demo_tutorial_basic_techniques_base -Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_base.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_alignment_scoring_scheme_affine_dgs -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_basics_show_alphabets +Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_basics_strings.dir/tutorial/basics/strings.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_strings.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/compiler_depend.internal". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/tutorial/bed_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_basics_base.dir/tutorial/basics/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_base.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/depend Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_alphabets_example_size +Dependencies file "demos/CMakeFiles/demo_tutorial_basics_strings.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_strings.dir/compiler_depend.internal". make[3]: Entering directory 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/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/DependInfo.cmake "--color=" Dependencies file "demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/tutorial/blast_io/read_assignment.cpp.o.d" is newer than depends file 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/tutorial/fragment_store/access_aligned_reads.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build.make demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_bed_io_example1 -Dependencies file "demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/compiler_depend.internal". -make[3]: Entering 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demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/build +make -f demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/build +make -f demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/build.make demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/build make -f demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/build.make demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/tutorial/fragment_store/display_aligned_reads.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build.make 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'demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/build'. -make -f demos/CMakeFiles/demo_tutorial_basics_strings.dir/build.make demos/CMakeFiles/demo_tutorial_basics_strings.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 45%] Built target demo_tutorial_basics_show_alphabets +[ 45%] Built target demo_tutorial_alphabets_assignment_1 +[ 45%] Built target demo_tutorial_alphabets_example_bitsPerValue +[ 45%] Built target demo_tutorial_alphabets_example_ordValue +[ 45%] Built target demo_tutorial_basic_techniques_base +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/depend +Consolidate compiler generated dependencies of target demo_tutorial_alphabets_example_size +Consolidate compiler generated dependencies of target demo_tutorial_alphabets_assignment_1_solution +Consolidate compiler generated dependencies of target demo_tutorial_basics_allocator +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/depend +Consolidate compiler generated dependencies of target demo_tutorial_background_and_motivation_example +make -f demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/depend +make -f demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/depend +make -f demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/tutorial/genome_annotations/assignment_1_hint.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_blast_io_read_assignment +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build.make demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build +make -f demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build.make demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_1_hint +Consolidate compiler generated dependencies of target demo_tutorial_consensus_alignment_with_positions +Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_1_solution +Consolidate compiler generated dependencies of target demo_tutorial_bed_io_solution2 Consolidate compiler generated dependencies of target demo_tutorial_blast_io_write_assignment -make -f demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_2_solution +Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_example2 Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_example1 -Consolidate compiler generated dependencies of target demo_tutorial_consensus_alignment_without_positions -Consolidate compiler generated dependencies of target demo_tutorial_consensus_alignment_with_positions +Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_3_solution +Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_4_solution +Consolidate compiler generated dependencies of target demo_tutorial_bed_io_example1 Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_access_aligned_reads2 +Consolidate compiler generated dependencies of target demo_tutorial_generic_programming_template_subclassing +Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_solution1 +Consolidate compiler generated dependencies of target demo_tutorial_basics_base +Consolidate compiler generated dependencies of target demo_tutorial_bed_io_solution1 +Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_base +Consolidate compiler generated dependencies of target demo_tutorial_blast_io_read_assignment +Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution2 +Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_base +Consolidate compiler generated dependencies of target demo_tutorial_bed_io_base +Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution1 +Consolidate compiler generated dependencies of target demo_tutorial_consensus_alignment_without_positions +Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution3 +Consolidate compiler generated dependencies of target demo_tutorial_bed_io_solution3 +Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_example1 +Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_base +Consolidate compiler generated dependencies of target demo_tutorial_basics_strings +Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_display_aligned_reads make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target demo_tutorial_generic_programming_example_hashing make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution3 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basics_base.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/tutorial/genome_annotations/assignment_1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basics_strings.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/tutorial/generic_programming/template_subclassing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_base -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_basics_base.dir/build.make demos/CMakeFiles/demo_tutorial_basics_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_basics_strings.dir/build.make demos/CMakeFiles/demo_tutorial_basics_strings.dir/build +make -f demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/build +make -f demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/build make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build'. +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file 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demo_tutorial_fragment_store_access_aligned_reads -make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basics_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution1 -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/tutorial/graph/graph_dijkstra.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/tutorial/gff_and_gtf_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_display_aligned_reads -Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_1_hint -make -f demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_2_solution -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basics_strings.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/tutorial/graph/graph_algo_scc.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_1_solution +make -f demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 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"/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/tutorial/graph/graph_hmm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_4_solution +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 44%] Built target demo_tutorial_alignment_align_assignment1 +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build'. -[ 44%] Built target demo_tutorial_alphabets_assignment_1 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_3_solution make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build -[ 44%] Built target demo_tutorial_alignment_graph -[ 44%] Built target demo_tutorial_alignment_scoring_scheme_matrix make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/build'. +[ 45%] Built target demo_tutorial_alphabets_example_size +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build'. -[ 44%] Built target demo_tutorial_alignment_graph_assignment1 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build'. make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 44%] Built target demo_tutorial_alignment_scoring_scheme_affine_dgs -[ 44%] Built target demo_tutorial_alphabets_assignment_1_solution -[ 45%] Built target demo_tutorial_alignment_scoring_scheme_simple make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build'. -[ 45%] Built target demo_tutorial_alphabets_example_size make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 45%] Built target demo_tutorial_basic_techniques_base -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/depend -[ 45%] Built target demo_tutorial_alphabets_example_bitsPerValue -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/depend -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/depend -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/depend -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/depend -[ 45%] Built target demo_tutorial_basics_base +make -f demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/build.make demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/depend +[ 45%] Built target demo_tutorial_alphabets_assignment_1_solution [ 45%] Built target demo_tutorial_basics_allocator make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/DependInfo.cmake "--color=" [ 46%] Built target demo_tutorial_background_and_motivation_example -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/DependInfo.cmake "--color=" -[ 46%] Built target demo_tutorial_alphabets_example_ordValue -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/DependInfo.cmake "--color=" -[ 46%] Built target demo_tutorial_bed_io_base -make -f demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/DependInfo.cmake "--color=" -[ 47%] Built target demo_tutorial_basics_show_alphabets -[ 47%] Built target demo_tutorial_bed_io_example1 -[ 46%] Built target demo_tutorial_bed_io_solution2 -[ 47%] Built target demo_tutorial_bed_io_solution3 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/DependInfo.cmake "--color=" -[ 47%] Built target demo_tutorial_basics_strings -[ 47%] Built target demo_tutorial_bed_io_solution1 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/depend -[ 48%] Built target demo_tutorial_consensus_alignment_with_positions -make -f demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/build.make demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/depend -[ 48%] Built target demo_tutorial_blast_io_read_assignment make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/depend make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/DependInfo.cmake "--color=" -[ 48%] Built target demo_tutorial_blast_io_write_assignment -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/DependInfo.cmake "--color=" +[ 46%] Built target demo_tutorial_genome_annotations_assignment_1_solution +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/depend +[ 47%] Built target demo_tutorial_bed_io_example1 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/DependInfo.cmake "--color=" -[ 48%] Built target demo_tutorial_consensus_alignment_without_positions +[ 47%] Built target demo_tutorial_bed_io_base +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/DependInfo.cmake "--color=" -[ 48%] Built target demo_tutorial_file_io_overview_example1 -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/depend -[ 48%] Built target demo_tutorial_fragment_store_access_aligned_reads2 -[ 50%] Built target demo_tutorial_file_io_overview_solution3 -[ 50%] Built target demo_tutorial_fragment_store_access_aligned_reads -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/depend -[ 50%] Built target demo_tutorial_file_io_overview_solution2 -[ 50%] Built target demo_tutorial_generic_programming_template_subclassing make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/depend -[ 50%] Built target demo_tutorial_generic_programming_example_hashing -[ 50%] Built target demo_tutorial_genome_annotations_assignment_2_solution -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/depend -[ 50%] Built target demo_tutorial_fragment_store_base -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/DependInfo.cmake "--color=" +[ 47%] Built target demo_tutorial_blast_io_read_assignment +[ 47%] Built target demo_tutorial_bed_io_solution2 +[ 47%] Built target demo_tutorial_bed_io_solution3 +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/depend -[ 51%] Built target demo_tutorial_file_io_overview_solution1 -[ 51%] Built target demo_tutorial_genome_annotations_assignment_1_hint make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/depend +[ 47%] Built target demo_tutorial_basics_strings +[ 47%] Built target demo_tutorial_blast_io_write_assignment +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/depend +[ 47%] Built target demo_tutorial_bed_io_solution1 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/DependInfo.cmake "--color=" -[ 51%] Built target demo_tutorial_genome_annotations_assignment_1_solution +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/depend +[ 47%] Built target demo_tutorial_basics_base +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/depend +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 48%] Built target demo_tutorial_consensus_alignment_with_positions cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/DependInfo.cmake "--color=" -[ 51%] Built target demo_tutorial_genome_annotations_assignment_4_solution +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 48%] Built target demo_tutorial_consensus_alignment_without_positions cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/DependInfo.cmake "--color=" -[ 51%] Built target demo_tutorial_fragment_store_display_aligned_reads -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/depend -[ 51%] Built target demo_tutorial_genome_annotations_assignment_3_solution -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/tutorial/gff_and_gtf_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/depend -make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/depend +[ 48%] Built target demo_tutorial_file_io_overview_example1 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/tutorial/gff_and_gtf_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/compiler_depend.internal". +[ 48%] Built target demo_tutorial_file_io_overview_solution1 +[ 48%] Built target demo_tutorial_file_io_overview_solution2 +make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/DependInfo.cmake "--color=" +[ 48%] Built target demo_tutorial_file_io_overview_solution3 +make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/depend +[ 48%] Built target demo_tutorial_fragment_store_access_aligned_reads2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/tutorial/gff_and_gtf_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/depend +[ 48%] Built target demo_tutorial_fragment_store_base +[ 48%] Built target demo_tutorial_fragment_store_display_aligned_reads +make -f demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/depend +[ 48%] Built target demo_tutorial_generic_programming_example_hashing +[ 48%] Built target demo_tutorial_generic_programming_template_subclassing make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_indices_base.dir/build.make demos/CMakeFiles/demo_tutorial_indices_base.dir/depend cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/depend +[ 48%] Built target demo_tutorial_genome_annotations_base make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/tutorial/graph/graph_algo_scc.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/tutorial/gff_and_gtf_io/example2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_indices_base.dir/build.make demos/CMakeFiles/demo_tutorial_indices_base.dir/depend make -f demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build.make demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/tutorial/gff_and_gtf_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_solution2 -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/tutorial/graph/graph_hmm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/build.make demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/depend +[ 50%] Built target demo_tutorial_genome_annotations_assignment_2_solution +[ 50%] Built target demo_tutorial_genome_annotations_assignment_1_hint make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/depend +make -f demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/build.make demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/depend +[ 50%] Built target demo_tutorial_genome_annotations_assignment_3_solution +[ 50%] Built target demo_tutorial_genome_annotations_assignment_4_solution make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_base.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/depend +[ 50%] Built target demo_tutorial_gff_and_gtf_io_example1 +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/tutorial/graph/graph_dijkstra.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_example1 +[ 51%] Built target demo_tutorial_gff_and_gtf_io_base +[ 51%] Built target demo_tutorial_gff_and_gtf_io_example2 +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/depend +[ 51%] Built target demo_tutorial_gff_and_gtf_io_solution1 +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/depend Dependencies file "demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/tutorial/graph/solution_1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 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"demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_iterators_base.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_base.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/DependInfo.cmake "--color=" Dependencies file "demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_iterators_base.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_base.dir/depend -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/tutorial/index_iterators/index_bidirectional_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/tutorial/index_iterators/index_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_graph_graph_algo_scc -Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_solution3 +make -f demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/tutorial/index_iterators/index_property_maps.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_base.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_example2 -Consolidate compiler generated dependencies of target demo_tutorial_graph_graph_hmm -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f 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/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/tutorial/index_iterators/index_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/tutorial/index_iterators/index_bidirectional_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/compiler_depend.internal". +make -f 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' 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"/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/tutorial/iterators/assignment_3_workshop.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/depend -Dependencies 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/compiler_depend.internal". -Dependencies file 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file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_base.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build'. +Consolidate compiler generated dependencies of target demo_tutorial_graph_solution_1 +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_search make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 51%] Built target demo_tutorial_gff_and_gtf_io_solution2 -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/tutorial/journaled_set/example_join.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/tutorial/iterators/sequence_iterator_demo.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/compiler_depend.internal". -[ 51%] Built target demo_tutorial_graph_graph_hmm -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/compiler_depend.internal". -[ 51%] Built target demo_tutorial_gff_and_gtf_io_example2 -make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/depend -make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/depend -[ 51%] Built target demo_tutorial_graph_solution_1 -[ 52%] Built target demo_tutorial_gff_and_gtf_io_base -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/tutorial/journaled_set/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/tutorial/journaled_set/example_online_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/build.make demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/build +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/build +[ 52%] Built target demo_tutorial_gff_and_gtf_io_solution3 +[ 52%] Built target demo_tutorial_index_iterators_iterator_assignment2 +[ 52%] Built target demo_tutorial_index_iterators_index_assignment1 +[ 52%] Built target demo_tutorial_graph_graph_hmm [ 52%] Built target demo_tutorial_graph_graph_algo_scc +[ 53%] Built target demo_tutorial_graph_graph_dijkstra +[ 52%] Built target demo_tutorial_index_iterators_index_property_maps +[ 52%] Built target demo_tutorial_index_iterators_index_assignment2 +[ 53%] Built target demo_tutorial_index_iterators_index_preorder +Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_access_aligned_reads +[ 52%] Built target demo_tutorial_gff_and_gtf_io_solution2 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/depend -make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/depend -[ 52%] Built target demo_tutorial_gff_and_gtf_io_solution3 -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/compiler_depend.internal". -[ 53%] Built target demo_tutorial_graph_graph_dijkstra -[ 53%] Built target demo_tutorial_gff_and_gtf_io_solution1 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/depend +make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/DependInfo.cmake "--color=" -[ 53%] Built target demo_tutorial_index_iterators_index_assignment1 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/DependInfo.cmake "--color=" -[ 53%] Built target demo_tutorial_gff_and_gtf_io_example1 +make -f demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/depend make -f demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/depend -[ 53%] Built target demo_tutorial_genome_annotations_base make -f demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/depend make -f demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 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/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/depend -[ 53%] Built target demo_tutorial_index_iterators_index_assignment2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/link.d" is newer than depends file 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/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 53%] Built target demo_tutorial_index_iterators_index_search +[ 53%] Built target demo_tutorial_graph_solution_1 +Dependencies file 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compiler generated dependencies of target demo_tutorial_indices_find2_index_approx +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_assignment1 +Consolidate compiler generated dependencies of target demo_tutorial_indices_assignment_1 +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_example_journal_string_basic +Consolidate compiler generated dependencies of target demo_tutorial_indices_fm_index Consolidate compiler generated dependencies of target demo_tutorial_indexed_fasta_io_base -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_property_maps -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_search -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_solution2 -Consolidate compiler generated dependencies of target demo_tutorial_indices_assignment_2 -Consolidate compiler generated dependencies of target demo_tutorial_iterators_base -Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_example_join -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_preorder -Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_4_workshop_solution -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/tutorial/journaled_set/solution_online_search_assignment4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_metafunctions_assignment1_solution +Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_2_solution Consolidate compiler generated dependencies of target 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demo_tutorial_modifiers_assignment1_solution +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_solution2 +Consolidate compiler generated dependencies of target demo_tutorial_iterators_sequence_iterator_demo Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_3_workshop_solution -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/compiler_depend.internal". 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demo_tutorial_index_iterators_index_search2 +Consolidate compiler generated dependencies of target demo_tutorial_metafunctions_base +Consolidate compiler generated dependencies of target demo_tutorial_modifiers_assignment1 +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_assignment2 +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_solution3 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build.make demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/tutorial/metafunctions/assignment1_solution.cpp.o.d" is newer 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"demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/tutorial/modifiers/assignment1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/link.d" is newer than depends file 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demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indices_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/build +make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build +make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/build +make -f demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/build +make -f demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build make -f demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/build.make demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/build -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build'. -make[3]: Leaving directory 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make -f demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/build make -f demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/build make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/build -make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to 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demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/build +make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indices_base.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build'. +make[3]: Nothing to 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'demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/build'. @@ -296588,244 +296668,352 @@ make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 53%] Built target demo_tutorial_index_iterators_iterator_solution3 -[ 53%] Built target demo_tutorial_index_iterators_index_bidirectional_search -[ 53%] Built target demo_tutorial_index_iterators_index_search2 -[ 53%] Built target demo_tutorial_index_iterators_index_property_maps -[ 54%] Built target demo_tutorial_indexed_fasta_io_solution1 -[ 54%] Built target demo_tutorial_indices_assignment_2 -[ 55%] Built target demo_tutorial_index_iterators_index_preorder -make -f demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/depend -make -f demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/depend -[ 55%] Built target demo_tutorial_indices_base -[ 55%] Built target demo_tutorial_indices_find2_index_approx -make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/depend -[ 56%] Built target demo_tutorial_index_iterators_iterator_solution2 -[ 56%] Built target demo_tutorial_index_iterators_index_search -make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/depend -[ 56%] Built target demo_tutorial_index_iterators_iterator_assignment2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/DependInfo.cmake "--color=" -[ 56%] Built target demo_tutorial_iterators_assignment_1_solution -make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/depend -[ 56%] Built target demo_tutorial_index_iterators_iterator_solution1 +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/DependInfo.cmake "--color=" -[ 56%] Built target demo_tutorial_indexed_fasta_io_solution2 +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 54%] Built target demo_tutorial_iterators_assignment_1 +[ 54%] Built target demo_tutorial_indices_find2_index_approx +[ 54%] Built target demo_tutorial_indices_base +[ 54%] Built target demo_tutorial_journaled_set_example_online_search +[ 54%] Built target demo_tutorial_iterators_base +[ 54%] Built target demo_tutorial_index_iterators_iterator_solution1 +[ 54%] Built target demo_tutorial_index_iterators_index_bidirectional_search +make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/depend +[ 54%] Built target demo_tutorial_index_iterators_index_search2 +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_assignment4 +Consolidate compiler generated dependencies of target demo_tutorial_journaled_string_tree_journaled_string_tree_base +Consolidate compiler generated dependencies of target demo_tutorial_modifiers_modview +Consolidate compiler generated dependencies of target demo_tutorial_modifiers_modreverse +Consolidate compiler generated dependencies of target demo_tutorial_modifiers_nested +Consolidate compiler generated dependencies of target demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 +make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/depend +[ 56%] Built target demo_tutorial_journaled_set_example_online_search_assignment1_hint +make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/depend make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/depend +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/depend -[ 56%] Built target demo_tutorial_indexed_fasta_io_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/DependInfo.cmake "--color=" -[ 56%] Built target demo_tutorial_iterators_assignment_4_workshop_solution +make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build +make -f demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build +make -f demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/depend +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/depend +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/depend +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/depend -[ 56%] Built target demo_tutorial_indices_fm_index -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/depend -[ 56%] Built target demo_tutorial_iterators_assignment_2_solution +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/depend -[ 56%] Built target demo_tutorial_iterators_assignment_1 +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/tutorial/multiple_sequence_alignment/assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/tutorial/multiple_sequence_alignment/msa.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/link.d" is newer than depends file 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"demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/tutorial/pairwise_sequence_alignment/alignment_global_specialised.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/compiler_depend.internal". +[ 60%] Built target demo_tutorial_modifiers_nested +[ 56%] Built target demo_tutorial_metafunctions_base +[ 60%] Built target demo_tutorial_modifiers_UNUSED_modcomplementdna +[ 56%] Built target demo_tutorial_indexed_fasta_io_base +[ 56%] Built target demo_tutorial_iterators_assignment_4_workshop_solution +[ 60%] Built target demo_tutorial_iterators_assignment_3_workshop +[ 56%] Built target demo_tutorial_indexed_fasta_io_solution2 +[ 56%] Built target demo_tutorial_iterators_sequence_iterator_demo +[ 56%] Built target demo_tutorial_indexed_fasta_io_solution1 [ 56%] Built target demo_tutorial_indices_assignment_1 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/DependInfo.cmake "--color=" +[ 56%] Built target demo_tutorial_journaled_set_solution_online_search_assignment2 +[ 56%] Built target demo_tutorial_iterators_assignment_2_solution +[ 56%] Built target demo_tutorial_modifiers_assignment1 +[ 56%] Built target demo_tutorial_journaled_set_example_journal_string_basic [ 56%] Built target demo_tutorial_iterators_assignment_3_workshop_solution -[ 56%] Built target demo_tutorial_iterators_sequence_iterator_demo +[ 56%] Built target demo_tutorial_metafunctions_assignment1_solution +[ 60%] Built target demo_tutorial_modifiers_modview +[ 60%] Built target demo_tutorial_index_iterators_iterator_solution2 +[ 56%] Built target demo_tutorial_iterators_assignment_1_solution +[ 56%] Built target demo_tutorial_index_iterators_iterator_solution3 +[ 60%] Built target demo_tutorial_modifiers_modreverse +[ 56%] Built target demo_tutorial_journaled_set_base +[ 60%] Built target demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 +[ 60%] Built target demo_tutorial_journaled_set_solution_online_search_assignment3 +[ 60%] Built target demo_tutorial_journaled_string_tree_journaled_string_tree_base +[ 56%] Built target demo_tutorial_indices_fm_index +[ 60%] Built target demo_tutorial_journaled_set_example_join +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/depend make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/DependInfo.cmake "--color=" +[ 58%] Built target demo_tutorial_indices_assignment_2 +[ 60%] Built target demo_tutorial_journaled_set_solution_online_search_assignment4 +[ 56%] Built target demo_tutorial_modifiers_assignment1_solution +[ 56%] Built target demo_tutorial_journaled_set_solution_online_search_assignment1 make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/DependInfo.cmake "--color=" -[ 56%] Built target demo_tutorial_journaled_set_example_online_search make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/depend -[ 57%] Built target demo_tutorial_iterators_assignment_3_workshop -make[3]: Entering directory 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demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/depend -[ 58%] Built target demo_tutorial_journaled_set_base -[ 58%] Built target demo_tutorial_journaled_set_example_join make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/DependInfo.cmake "--color=" -[ 58%] Built target demo_tutorial_iterators_base make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/depend -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/depend make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/depend -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/depend make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/build.make 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cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 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make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/compiler_depend.internal". -Dependencies file 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -296846,483 +297034,475 @@ make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory 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demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/build +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/build +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_index +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment1 +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment3_solution +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build make[3]: Entering directory 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Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment5_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/build'. make[3]: Leaving directory 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 58%] Built target demo_tutorial_journaled_set_solution_online_search_assignment1 -[ 58%] Built target demo_tutorial_journaled_set_example_online_search_assignment1_hint -[ 58%] Built target demo_tutorial_journaled_set_solution_online_search_assignment2 -[ 58%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised -[ 58%] Built target demo_tutorial_journaled_set_solution_online_search_assignment4 -[ 59%] Built target demo_tutorial_journaled_set_solution_online_search_assignment3 -[ 59%] Built target demo_tutorial_metafunctions_assignment1_solution -[ 59%] Built target demo_tutorial_modifiers_assignment1_solution -[ 59%] Built target demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 -[ 59%] Built target demo_tutorial_modifiers_modreverse -[ 59%] Built target demo_tutorial_journaled_string_tree_journaled_string_tree_base -[ 60%] Built target demo_tutorial_modifiers_UNUSED_modcomplementdna -[ 60%] Built target demo_tutorial_modifiers_assignment1 -[ 60%] Built target demo_tutorial_metafunctions_base -[ 60%] Built target demo_tutorial_modifiers_modview -[ 60%] Built target demo_tutorial_modifiers_nested -[ 60%] Built target demo_tutorial_multiple_sequence_alignment_assignment1 -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/depend -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/depend -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/depend -[ 61%] Built target demo_tutorial_multiple_sequence_alignment_consensus -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/depend -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/DependInfo.cmake "--color=" -[ 61%] Built target demo_tutorial_multiple_sequence_alignment_msa +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/depend -[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 -[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 -[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2 -[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/depend +make[3]: Nothing to be done for 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demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/depend -[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_standard +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/depend -[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1 +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 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for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/DependInfo.cmake "--color=" -[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_local -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/depend -[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5 +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/DependInfo.cmake "--color=" -[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step3 -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/depend -[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step1 -[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step2 -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/depend -[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step6 -[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step4 -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/depend -[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step5 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/DependInfo.cmake "--color=" -[ 63%] Built target demo_tutorial_parsing_command_line_arguments_assignment5_solution -make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment3 +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment1_solution +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step4 +[ 61%] Built target demo_tutorial_pattern_matching_assignment2_solution +[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_standard +[ 61%] Built target demo_tutorial_parsing_command_line_arguments_example_with_struct +[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 +[ 67%] Built target demo_tutorial_parsing_command_line_arguments_assignment2_solution +[ 61%] Built target demo_tutorial_parsing_command_line_arguments_final_solution +[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2 +[ 61%] Built target demo_tutorial_parsing_command_line_arguments_example_with_own_function +[ 61%] Built target demo_tutorial_parsing_command_line_arguments_assignment6_solution +[ 61%] Built target demo_tutorial_multiple_sequence_alignment_assignment1 +[ 61%] Built target demo_tutorial_parsing_command_line_arguments_base +[ 61%] Built target demo_tutorial_parsing_command_line_arguments_assignment5_solution +[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised +[ 61%] Built target demo_tutorial_parsing_command_line_arguments_assignment4_solution +[ 61%] Built target demo_tutorial_pattern_matching_find_index +[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1 +[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_local +[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step5 +[ 61%] Built target demo_tutorial_pattern_matching_find_approx +[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step3 +[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5 +[ 61%] Built target demo_tutorial_parsing_command_line_arguments_example_with_modifyString +[ 61%] Built target demo_tutorial_pattern_matching_assignment1 +[ 67%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap +[ 61%] Built target demo_tutorial_pattern_matching_assignment3_solution +[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 +[ 67%] Built target demo_tutorial_parsing_command_line_arguments_example1_detailed +[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_banded +[ 67%] Built target demo_tutorial_pattern_matching_find_exact +[ 61%] Built target demo_tutorial_pattern_matching_assignment2 +[ 61%] Built target demo_tutorial_multiple_sequence_alignment_msa +[ 64%] Built target demo_tutorial_multiple_sequence_alignment_consensus +[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step6 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/depend +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/build +[ 67%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step1 +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/DependInfo.cmake "--color=" -[ 63%] Built target demo_tutorial_parsing_command_line_arguments_assignment4_solution +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/DependInfo.cmake "--color=" -[ 64%] Built target demo_tutorial_parsing_command_line_arguments_assignment2_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/DependInfo.cmake "--color=" +[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step2 +[ 61%] Built target demo_tutorial_parsing_command_line_arguments_example1 +make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/depend make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/depend -[ 64%] Built target demo_tutorial_parsing_command_line_arguments_base -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/DependInfo.cmake "--color=" -[ 64%] Built target demo_tutorial_parsing_command_line_arguments_assignment3_solution make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/depend make -f demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/DependInfo.cmake "--color=" -[ 64%] Built target demo_tutorial_parsing_command_line_arguments_assignment6_solution make -f demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/depend make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/depend +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step2.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/depend make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/depend 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make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/depend +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd 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+make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/depend +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/depend +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/depend make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/depend -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/depend -[ 65%] Built target demo_tutorial_parsing_command_line_arguments_example1 -[ 65%] Built target demo_tutorial_parsing_command_line_arguments_example1_detailed -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 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/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/compiler_depend.internal". +[ 67%] Built target demo_tutorial_parsing_command_line_arguments_assignment3_solution +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/build.make 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Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/tutorial/seed_and_extend/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/tutorial/sam_and_bam_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_realignment_step2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/tutorial/sam_and_bam_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/depend +[ 67%] Built target demo_tutorial_pattern_matching_assignment3 +Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_realignment_step1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step1.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o.d" is newer than depends file 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"--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu 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dependencies of target demo_tutorial_seed_and_extend_example3 -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_approx +Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_example7 Consolidate compiler generated dependencies of target demo_tutorial_realignment_step2 -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_index -Consolidate compiler generated dependencies of target demo_tutorial_realignment_step1 -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_index_multiple -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example5 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example3 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution2 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example1 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution1 Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example4 -Consolidate compiler generated dependencies of target demo_tutorial_q_gram_index_index_qgram +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution3 Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example6 -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment2 -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_final_solution -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_example_with_own_function -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_example_with_struct -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution6 -Dependencies file "demos/CMakeFiles/demo_tutorial_seeds_example1.dir/tutorial/seeds/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seeds_example1.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_seeds_example1 Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example7 -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example1 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_seeds_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seeds_example1.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution6 +Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution3 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example5 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution4 +Consolidate compiler generated dependencies of target demo_tutorial_seeds_solution1 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example2 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_base make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example2 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_example1 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_example_with_modifyString make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -297334,288 +297514,283 @@ make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/build -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/build -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/build -make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build make -f demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build'. -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 65%] Built target demo_tutorial_parsing_command_line_arguments_example_with_own_function -[ 65%] Built target demo_tutorial_pattern_matching_assignment3 -[ 67%] Built target demo_tutorial_pattern_matching_assignment1_solution -[ 67%] Built target demo_tutorial_pattern_matching_assignment2_solution -make -f demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/depend -[ 67%] Built target demo_tutorial_parsing_command_line_arguments_example_with_modifyString -[ 67%] Built target demo_tutorial_parsing_command_line_arguments_final_solution make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/DependInfo.cmake "--color=" -[ 67%] Built target demo_tutorial_pattern_matching_assignment2 -make -f demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/depend -[ 67%] Built target demo_tutorial_pattern_matching_find_index -make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/depend -make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/depend -[ 67%] Built target demo_tutorial_parsing_command_line_arguments_example_with_struct -make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/depend -[ 68%] Built target demo_tutorial_pattern_matching_find_approx -[ 68%] Built target demo_tutorial_pattern_matching_find_exact -[ 68%] Built target demo_tutorial_q_gram_index_index_qgram +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/depend -[ 68%] Built target demo_tutorial_pattern_matching_assignment1 +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/DependInfo.cmake "--color=" -[ 68%] Built target demo_tutorial_pattern_matching_assignment3_solution +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/depend -[ 69%] Built target demo_tutorial_q_gram_index_index_assignment5 -[ 69%] Built target demo_tutorial_q_gram_index_index_qgram_hash -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/DependInfo.cmake "--color=" -[ 69%] Built target demo_tutorial_pattern_matching_find_index_multiple +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 68%] Built target demo_tutorial_pattern_matching_find_index_multiple make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/depend +[ 68%] Built target demo_tutorial_realignment_step2 +Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution2 +Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_4_solution +Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_2_solution +Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_3_solution +[ 69%] Built target demo_tutorial_seeds_solution1 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/depend make -f demos/CMakeFiles/demo_tutorial_sequences_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_base.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/DependInfo.cmake "--color=" -[ 69%] Built target demo_tutorial_sam_and_bam_io_example2 -make -f demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/depend -[ 69%] Built target demo_tutorial_q_gram_index_index_assignment6 -[ 69%] Built target demo_tutorial_realignment_step1 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/depend -[ 69%] Built target demo_tutorial_sam_and_bam_io_base +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/depend -[ 69%] Built target demo_tutorial_realignment_step2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_base.dir/DependInfo.cmake "--color=" -[ 69%] Built target demo_tutorial_sam_and_bam_io_solution2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/tutorial/sequences/assignment_5_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_base.dir/tutorial/sequences/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_base.dir/compiler_depend.internal". +[ 69%] Built target demo_tutorial_sequence_io_solution3 [ 69%] Built target demo_tutorial_sam_and_bam_io_example1 +[ 69%] Built target demo_tutorial_seed_and_extend_example5 +[ 69%] Built target demo_tutorial_sam_and_bam_io_example7 +[ 69%] Built target demo_tutorial_seed_and_extend_example1 +[ 69%] Built target demo_tutorial_seed_and_extend_example3 +[ 69%] Built target demo_tutorial_sam_and_bam_io_example2 +[ 69%] Built target demo_tutorial_seed_and_extend_solution4 +[ 69%] Built target demo_tutorial_seed_and_extend_solution1 +[ 69%] Built target demo_tutorial_realignment_step1 +[ 69%] Built target demo_tutorial_sam_and_bam_io_solution3 +[ 69%] Built target demo_tutorial_sam_and_bam_io_solution2 +[ 69%] Built target demo_tutorial_seed_and_extend_solution6 +[ 69%] Built target demo_tutorial_seed_and_extend_example6 +[ 69%] Built target demo_tutorial_seed_and_extend_example2 +[ 69%] Built target demo_tutorial_q_gram_index_index_assignment5 +[ 69%] Built target demo_tutorial_q_gram_index_index_qgram +[ 69%] Built target demo_tutorial_sam_and_bam_io_base +[ 69%] Built target demo_tutorial_seed_and_extend_example7 +[ 69%] Built target demo_tutorial_seeds_example1 +[ 69%] Built target demo_tutorial_q_gram_index_index_assignment6 +[ 72%] Built target demo_tutorial_seed_and_extend_example4 +[ 69%] Built target demo_tutorial_sequence_io_example1 +[ 69%] Built target demo_tutorial_seed_and_extend_solution2 +[ 69%] Built target demo_tutorial_sequence_io_solution1 +make -f demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/depend +[ 69%] Built target demo_tutorial_seed_and_extend_solution5 +[ 73%] Built target demo_tutorial_sequences_assignment_1_solution +[ 73%] Built target demo_tutorial_sequences_assignment_4_solution +[ 73%] Built target demo_tutorial_sequence_io_solution2 +[ 73%] Built target demo_tutorial_sequence_io_solution4 +[ 73%] Built target demo_tutorial_sam_and_bam_io_solution1 +[ 73%] Built target demo_tutorial_sequences_assignment_3 +[ 73%] Built target demo_tutorial_q_gram_index_index_qgram_hash +[ 74%] Built target demo_tutorial_sequence_io_base +[ 74%] Built target demo_tutorial_sequences_assignment_2_solution +[ 73%] Built target demo_tutorial_seed_and_extend_solution3 +[ 73%] Built target demo_tutorial_sequences_assignment_3_solution +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/depend +make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/DependInfo.cmake "--color=" -[ 70%] Built target demo_tutorial_sam_and_bam_io_example7 -[ 70%] Built target demo_tutorial_sam_and_bam_io_solution1 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/depend make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/depend -[ 70%] Built target demo_tutorial_sam_and_bam_io_solution3 -[ 70%] Built target demo_tutorial_seed_and_extend_example2 -[ 70%] Built target demo_tutorial_seed_and_extend_example6 -make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/depend -[ 70%] Built target demo_tutorial_seed_and_extend_example5 -[ 70%] Built target demo_tutorial_seed_and_extend_example7 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/DependInfo.cmake "--color=" -[ 70%] Built target demo_tutorial_seed_and_extend_example3 +make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/depend +make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/depend -[ 71%] Built target demo_tutorial_seed_and_extend_example4 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/DependInfo.cmake "--color=" -[ 71%] Built target demo_tutorial_seed_and_extend_example1 make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/depend -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 71%] Built target demo_tutorial_seed_and_extend_solution6 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/DependInfo.cmake "--color=" -[ 71%] Built target demo_tutorial_seed_and_extend_solution1 make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/depend -[ 71%] Built target demo_tutorial_seed_and_extend_solution2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/depend make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/tutorial/sequence_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/depend @@ -297627,155 +297802,184 @@ make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/depend +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/tutorial/sequence_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/tutorial/sequence_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/tutorial/sequence_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/tutorial/sequence_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/compiler_depend.internal". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/tutorial/sequences/assignment_1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/compiler_depend.internal". -Dependencies file 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dependencies of target demo_tutorial_vcf_io_base Consolidate compiler generated dependencies of target demo_tutorial_sequences_base +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution2 +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_2_solution Consolidate compiler generated dependencies of target demo_tutorial_sequences_in_depth_assignment_exact_generous_solution -Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution1 -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_2 +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment1 +Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_conversions_copy Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment2 -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution2 +Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_segments +Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_conversions_move +Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_5_solution +Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_functionality2 +Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_comparisons +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_base Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution1 -Consolidate compiler generated dependencies of target demo_tutorial_sequences_in_depth_base +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_2 +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment3 Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_functionality1 -Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_5_solution +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_alphabet +Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_solution2 +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_3_workshop_solution Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment4 -Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution4 -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution4 -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution5 +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution3 +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_example_iterators +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_base +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_example_functionality_2 +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment5 +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution5 +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_1_solution Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_6_solution -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment1 -Consolidate compiler generated dependencies of target demo_tutorial_seeds_solution1 -Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_conversions_move -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution3 -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_base -Consolidate compiler generated dependencies of target demo_tutorial_seeds_example1 +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_example_functionality Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution4 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_sequences_in_depth_example_overflow -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_interval_tree -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution3 -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution5 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_sequences_in_depth_base make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_conversions_copy make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_functionality2 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -297789,7 +297993,6 @@ make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -297799,672 +298002,458 @@ make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build -make -f demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/build -make -f demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build'. +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequences_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/build +make -f 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demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/build +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/build +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/build +make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build +make -f demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build +make -f demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build +make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_example1 +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_4_workshop_solution make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f 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demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_base.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build.make 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/build'. make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build'. -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build'. -make[3]: Leaving directory 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demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 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demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build'. +make[3]: Nothing to be done for 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directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/build'. make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/build'. make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 71%] Built target demo_tutorial_seeds_solution1 -[ 71%] Built target demo_tutorial_seed_and_extend_solution5 -[ 73%] Built target demo_tutorial_simple_rna_seq_genequant_solution3 -[ 73%] Built target demo_tutorial_seeds_example1 -[ 73%] Built target demo_tutorial_sequences_example_segments -[ 73%] Built target demo_tutorial_seed_and_extend_solution4 -[ 73%] Built target demo_tutorial_sequences_assignment_1_solution -[ 74%] Built target demo_tutorial_seed_and_extend_solution3 -[ 74%] Built target demo_tutorial_string_sets_assignment_1_solution -[ 74%] Built target demo_tutorial_sequence_io_example1 -[ 75%] Built target demo_tutorial_sequences_assignment_3_solution -[ 75%] Built target demo_tutorial_sequence_io_base -[ 75%] Built target demo_tutorial_sequence_io_solution1 -[ 76%] Built target demo_tutorial_sequence_io_solution2 -[ 76%] Built target demo_tutorial_sequence_io_solution3 -[ 76%] Built target demo_tutorial_sequences_assignment_2_solution -[ 76%] Built target demo_tutorial_sequence_io_solution4 -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/depend -[ 76%] Built target demo_tutorial_sequences_assignment_3 -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/depend -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/depend -make -f demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_base.dir/depend -[ 76%] Built target demo_tutorial_sequences_assignment_4_solution -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/depend -[ 76%] Built target demo_tutorial_sequences_example_functionality1 -[ 77%] Built target demo_tutorial_sequences_base -[ 77%] Built target demo_tutorial_sequences_assignment_5_solution -[ 77%] Built target demo_tutorial_sequences_example_conversions_copy -[ 77%] Built target demo_tutorial_sequences_assignment_6_solution -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/depend -[ 77%] Built target demo_tutorial_sequences_example_comparisons make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_base.dir/DependInfo.cmake "--color=" -[ 77%] Built target demo_tutorial_sequences_in_depth_assignment_exact_generous_solution -[ 77%] Built target demo_tutorial_simple_rna_seq_base -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/depend -[ 77%] Built target demo_tutorial_sequences_example_conversions_move -[ 77%] Built target demo_tutorial_sequences_example_functionality2 -make -f demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/depend -[ 77%] Built target demo_tutorial_simple_rna_seq_genequant_assignment1 -make -f demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/DependInfo.cmake "--color=" -[ 77%] Built target demo_tutorial_sequences_in_depth_base -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/depend -[ 77%] Built target demo_tutorial_simple_rna_seq_genequant_assignment4 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/DependInfo.cmake "--color=" -[ 77%] Built target demo_tutorial_sequences_in_depth_example_overflow -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/DependInfo.cmake "--color=" -[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_assignment2 -make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/depend -[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_assignment3 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/build.make demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/depend -[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_assignment5 -[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_solution1 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 74%] Built target demo_tutorial_sequences_in_depth_assignment_exact_generous_solution +[ 74%] Built target demo_tutorial_sequences_in_depth_base +[ 74%] Built target demo_tutorial_sequences_example_comparisons make -f demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/depend +Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_solution1 +Consolidate compiler generated dependencies of target demo_tutorial_workflows_knime_node +[ 74%] Built target demo_tutorial_sequences_assignment_5_solution +[ 75%] Built target demo_tutorial_vcf_io_solution3 +[ 75%] Built target demo_tutorial_simple_rna_seq_interval_tree +[ 77%] Built target demo_tutorial_sequences_base make -f demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/DependInfo.cmake "--color=" +[ 75%] Built target demo_tutorial_simple_rna_seq_base +[ 75%] Built target demo_tutorial_string_sets_assignment_2 +[ 75%] Built target demo_tutorial_simple_rna_seq_genequant_solution4 +[ 75%] Built target demo_tutorial_sequences_in_depth_example_overflow +[ 75%] Built target demo_tutorial_simple_rna_seq_genequant_solution2 +[ 75%] Built target demo_tutorial_sequences_assignment_6_solution +[ 75%] Built target demo_tutorial_string_sets_example_functionality_2 +[ 75%] Built target demo_tutorial_sequences_example_conversions_copy +[ 75%] Built target demo_tutorial_simple_rna_seq_genequant_assignment4 +[ 81%] Built target demo_tutorial_vcf_io_base +[ 75%] Built target demo_tutorial_sequences_example_conversions_move +[ 75%] Built target demo_tutorial_simple_rna_seq_genequant_assignment3 +[ 75%] Built target demo_tutorial_sequences_example_functionality2 +[ 75%] Built target demo_tutorial_string_sets_assignment_1_solution +[ 81%] Built target demo_tutorial_simple_rna_seq_genequant_solution3 +[ 75%] Built target demo_tutorial_vcf_io_example1 +[ 75%] Built target demo_tutorial_vcf_io_solution2 +[ 75%] Built target demo_tutorial_sequences_example_functionality1 +[ 75%] Built target demo_tutorial_string_sets_example_iterators +[ 81%] Built target demo_unassigned_or_unused_alphabet +[ 75%] Built target demo_tutorial_string_sets_base +[ 75%] Built target demo_tutorial_simple_rna_seq_genequant_solution5 +[ 75%] Built target demo_tutorial_string_sets_assignment_4_workshop_solution make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/depend +[ 81%] Built target demo_tutorial_simple_rna_seq_genequant_assignment2 +[ 80%] Built target demo_tutorial_string_sets_assignment_3_workshop_solution +[ 75%] Built target demo_tutorial_string_sets_assignment_2_solution make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/DependInfo.cmake "--color=" -[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_solution4 +[ 75%] Built target demo_tutorial_simple_rna_seq_genequant_assignment5 +make -f demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/depend -make -f demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/depend +[ 75%] Built target demo_tutorial_string_sets_example_functionality +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/depend -[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_solution2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/depend cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/DependInfo.cmake "--color=" -[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_solution5 +[ 75%] Built target demo_tutorial_simple_rna_seq_genequant_assignment1 +[ 81%] Built target demo_tutorial_sequences_example_segments +make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/build.make demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/depend -make -f demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/depend cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/DependInfo.cmake "--color=" -[ 78%] Built target demo_tutorial_simple_rna_seq_interval_tree +make -f demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/depend cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/depend -[ 78%] Built target demo_tutorial_string_sets_assignment_2 +make -f demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/tutorial/string_sets/assignment_2_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/compiler_depend.internal". -Dependencies file 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/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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-make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/compiler_depend.internal". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/DependInfo.cmake "--color=" -Dependencies file 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/depend make -f demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/tutorial/vcf_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/depend -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/unassigned_or_unused/arg_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/unassigned_or_unused/alphabet.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/tutorial/vcf_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/tutorial/vcf_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/unassigned_or_unused/bamutil.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/compiler_depend.internal". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/unassigned_or_unused/bam_print_alignments.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/unassigned_or_unused/arg_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/depend +[ 81%] Built target demo_tutorial_simple_rna_seq_genequant_solution1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/tutorial/vcf_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/unassigned_or_unused/benchmark_stream.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/depend -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/tutorial/workflows/knime_node.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_3_workshop_solution -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_example_functionality make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_2_solution -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_example_iterators -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_alphabet -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_example_functionality_2 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_solution1 -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_4_workshop_solution -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_example1 -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/unassigned_or_unused/bam_print_alignments.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_base -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/build.make 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"/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_arg_align -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_solution3 -Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_solution2 -Dependencies file 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Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/unassigned_or_unused/file_speed.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 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-make -f demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/depend -make -f demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/depend -[ 78%] Built target demo_tutorial_string_sets_assignment_2_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/DependInfo.cmake "--color=" -[ 78%] Built target demo_tutorial_vcf_io_solution1 -[ 78%] Built target demo_tutorial_vcf_io_example1 -[ 78%] Built target demo_tutorial_string_sets_base -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/depend -[ 79%] Built target demo_tutorial_string_sets_assignment_3_workshop_solution -[ 79%] Built target demo_tutorial_vcf_io_solution3 -make -f demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/depend -[ 80%] Built target demo_unassigned_or_unused_alphabet -[ 80%] Built target demo_tutorial_string_sets_example_iterators make -f demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/DependInfo.cmake "--color=" -[ 80%] Built target demo_unassigned_or_unused_arg_align +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/DependInfo.cmake "--color=" -[ 80%] Built target demo_tutorial_string_sets_assignment_4_workshop_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/depend +[ 81%] Built target demo_tutorial_vcf_io_solution1 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 81%] Built target demo_tutorial_vcf_io_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/unassigned_or_unused/benchmark_stream_write.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/unassigned_or_unused/file_format.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/unassigned_or_unused/gff2gtf.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/unassigned_or_unused/filter_sam.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/unassigned_or_unused/file_speed.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/depend cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/DependInfo.cmake "--color=" -[ 81%] Built target demo_tutorial_vcf_io_solution2 -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/build.make 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Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_find_stringset -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_minimapper -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_modifier_nested -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_iterator -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_supermaxrepeats -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_graph_hmm_silent Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_lcp +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target demo_unassigned_or_unused_file_readwrite -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_sample_seqs -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_file_format -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_soft_to_hard_masking -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_bam_library_size -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_bam_print_alignments -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_count_generic_characters -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_gff2gtf -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_file_io_mmap_string_example -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_sufarray -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_find -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_sam2svg -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_replace_as -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_segmentalignment -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_parse_lm_stellar -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_mums -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_file_io_solution1 -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_benchmark_stream_write -Consolidate compiler generated dependencies of target demo_tutorial_workflows_knime_node -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_file_io_example1 -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_seeds -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_count_characters -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_modifier_modview -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_sequence_length -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_rooted_iterator -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_node_predicate +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_arg_align +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_annotation_converter make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_sufarray +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/build.make demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -298473,976 +298462,1023 @@ make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build -make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build -make -f demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build make -f demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/build -make -f demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/build -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/build make -f demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build make -f 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demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/build make -f demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/build make -f demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build 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demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build -make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/build make[3]: Entering directory 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 81%] Built target demo_unassigned_or_unused_file_format +[ 81%] Built target demo_unassigned_or_unused_bamutil +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/depend +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_bam_library_size +[ 82%] Built target demo_unassigned_or_unused_index_find +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_bam_print_alignments +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/depend +[ 82%] Built target demo_unassigned_or_unused_index_mums +[ 82%] Built target demo_unassigned_or_unused_filter_sam +[ 82%] Built target demo_unassigned_or_unused_annotation_converter +[ 82%] Built target demo_unassigned_or_unused_index_lcp +[ 82%] Built target demo_unassigned_or_unused_index_find_stringset +[ 82%] Built target demo_unassigned_or_unused_benchmark_stream_write +[ 82%] Built target demo_unassigned_or_unused_file_readwrite +[ 82%] Built target demo_unassigned_or_unused_find_wild +[ 86%] Built target demo_unassigned_or_unused_gff2gtf +[ 82%] Built target demo_unassigned_or_unused_graph_hmm_silent +[ 82%] Built target demo_unassigned_or_unused_iterator +[ 82%] Built target demo_unassigned_or_unused_modifier_modview +[ 82%] Built target demo_unassigned_or_unused_file_speed +[ 82%] Built target demo_unassigned_or_unused_index_sufarray +[ 85%] Built target demo_unassigned_or_unused_benchmark_stream +[ 82%] Built target demo_unassigned_or_unused_arg_align +[ 86%] Built target demo_unassigned_or_unused_index_node_predicate +[ 86%] Built target demo_unassigned_or_unused_modifier_modreverse +[ 82%] Built target demo_unassigned_or_unused_index_qgram_counts make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/build'. +[ 82%] Built target demo_unassigned_or_unused_index_supermaxrepeats make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 81%] Built target demo_tutorial_workflows_knime_node -[ 81%] Built target demo_unassigned_or_unused_annotation_converter -[ 81%] Built target demo_unassigned_or_unused_index_qgram_counts -[ 81%] Built target demo_unassigned_or_unused_minimapper -[ 81%] Built target demo_unassigned_or_unused_bam_print_alignments -[ 81%] Built target demo_unassigned_or_unused_bam_library_size -[ 81%] Built target demo_unassigned_or_unused_benchmark_stream_write -[ 81%] Built target demo_unassigned_or_unused_file_format -[ 81%] Built target demo_unassigned_or_unused_bamutil make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/depend -[ 81%] Built target demo_unassigned_or_unused_file_speed -[ 82%] Built target demo_unassigned_or_unused_benchmark_stream -[ 82%] Built target demo_unassigned_or_unused_index_find -[ 82%] Built target demo_unassigned_or_unused_find_wild -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/depend -[ 82%] Built target demo_unassigned_or_unused_file_readwrite make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/DependInfo.cmake "--color=" -[ 82%] Built target demo_unassigned_or_unused_graph_hmm_silent +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/depend make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/depend make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/DependInfo.cmake "--color=" -[ 82%] Built target demo_unassigned_or_unused_filter_sam -[ 84%] Built target demo_unassigned_or_unused_gff2gtf -[ 84%] Built target demo_unassigned_or_unused_index_lcp -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/depend make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/depend -[ 84%] Built target demo_unassigned_or_unused_index_mums -[ 84%] Built target demo_unassigned_or_unused_index_find_stringset make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/DependInfo.cmake "--color=" -[ 85%] Built target demo_unassigned_or_unused_index_node_predicate +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/depend -[ 85%] Built target demo_unassigned_or_unused_modifier_modview make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/DependInfo.cmake "--color=" -[ 85%] Built target demo_unassigned_or_unused_index_supermaxrepeats -[ 86%] Built target demo_unassigned_or_unused_modifier_modreverse -[ 86%] Built target demo_unassigned_or_unused_iterator +make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/DependInfo.cmake "--color=" -[ 86%] Built target demo_unassigned_or_unused_index_sufarray -[ 86%] Built target demo_unassigned_or_unused_modifier_nested +make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/depend -[ 86%] Built target demo_unassigned_or_unused_sam2svg -make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/depend -[ 86%] Built target demo_unassigned_or_unused_rooted_iterator -[ 86%] Built target demo_unassigned_or_unused_parse_lm_stellar -[ 86%] Built target demo_unassigned_or_unused_seeds -make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/depend make -f apps/bs_tools/CMakeFiles/casbar.dir/build.make apps/bs_tools/CMakeFiles/casbar.dir/depend -[ 86%] Built target demo_unassigned_or_unused_tutorial_file_io_example1 -[ 86%] Built target demo_unassigned_or_unused_soft_to_hard_masking -[ 86%] Built target demo_unassigned_or_unused_segmentalignment -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf/CMakeFiles/alf.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/DependInfo.cmake "--color=" -[ 87%] Built target demo_unassigned_or_unused_sample_seqs make -f apps/bs_tools/CMakeFiles/four2three.dir/build.make apps/bs_tools/CMakeFiles/four2three.dir/depend make -f apps/dfi/CMakeFiles/dfi.dir/build.make apps/dfi/CMakeFiles/dfi.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf/CMakeFiles/alf.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/bisar.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/casbar.dir/DependInfo.cmake "--color=" -[ 87%] Built target demo_unassigned_or_unused_sequence_length +make -f apps/fiona/CMakeFiles/compute_gain.dir/build.make apps/fiona/CMakeFiles/compute_gain.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/four2three.dir/DependInfo.cmake "--color=" -make -f apps/fiona/CMakeFiles/compute_gain.dir/build.make apps/fiona/CMakeFiles/compute_gain.dir/depend -[ 87%] Built target demo_unassigned_or_unused_tutorial_file_io_mmap_string_example -[ 87%] Built target demo_unassigned_or_unused_tutorial_sequence_count_characters make -f apps/fiona/CMakeFiles/fiona.dir/build.make apps/fiona/CMakeFiles/fiona.dir/depend -[ 88%] Built target demo_unassigned_or_unused_tutorial_file_io_solution1 -[ 88%] Built target demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats -make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/depend cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/dfi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/dfi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/dfi/CMakeFiles/dfi.dir/DependInfo.cmake "--color=" -[ 88%] Built target demo_unassigned_or_unused_tutorial_sequence_count_generic_characters -make -f apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build.make apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/compute_gain.dir/DependInfo.cmake "--color=" -[ 88%] Built target demo_unassigned_or_unused_tutorial_sequence_replace_as +make -f apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build.make apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/fiona.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/compiler_depend.internal". +make -f apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build.make apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/depend +make -f apps/gustaf/CMakeFiles/gustaf.dir/build.make apps/gustaf/CMakeFiles/gustaf.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/fiona_illumina.dir/DependInfo.cmake "--color=" -make -f apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build.make apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/depend -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fx_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/DependInfo.cmake "--color=" -make -f apps/gustaf/CMakeFiles/gustaf.dir/build.make apps/gustaf/CMakeFiles/gustaf.dir/depend -make -f apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build.make apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/depend -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/unassigned_or_unused/tutorial_sequence/replace_as.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fx_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf/CMakeFiles/gustaf.dir/DependInfo.cmake "--color=" -make -f apps/insegt/CMakeFiles/insegt.dir/build.make apps/insegt/CMakeFiles/insegt.dir/depend -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/DependInfo.cmake "--color=" -Dependencies file 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compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_solution4 -Consolidate compiler generated dependencies of target gustaf_mate_joining -Consolidate compiler generated dependencies of target fx_bam_coverage -Consolidate compiler generated dependencies of target bisar -Consolidate compiler generated dependencies of target four2three -Consolidate compiler generated dependencies of target fx_fastq_stats -Consolidate compiler generated dependencies of target roi_plot_thumbnails -Consolidate compiler generated dependencies of target gustaf -Consolidate compiler generated dependencies of target rabema_prepare_sam Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_parse_blastn -Consolidate compiler generated dependencies of target mason_genome -Consolidate compiler generated dependencies of target 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compiler generated dependencies of target mason_variator -Consolidate compiler generated dependencies of target micro_razers -Consolidate compiler generated dependencies of target roi_feature_projection -Consolidate compiler generated dependencies of target rabema_do_search -Consolidate compiler generated dependencies of target mason_simulator +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_example1 +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_file_io_example1 +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_rooted_iterator +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_file_io_mmap_string_example +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_parse_lm_stellar 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'/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "apps/gustaf/CMakeFiles/gustaf.dir/gustaf.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf/CMakeFiles/gustaf.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/build +Dependencies file "apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/compiler_depend.internal". +make -f 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demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_reader_demo +Consolidate compiler generated dependencies of target compute_gain +Consolidate compiler generated dependencies of target alf +Dependencies file "apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/compiler_depend.internal". +make -f apps/insegt/CMakeFiles/insegt.dir/build.make apps/insegt/CMakeFiles/insegt.dir/depend +Dependencies file "apps/gustaf/CMakeFiles/gustaf.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf/CMakeFiles/gustaf.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory 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demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build -make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/build -make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/build -make -f apps/bs_tools/CMakeFiles/casbar.dir/build.make apps/bs_tools/CMakeFiles/casbar.dir/build -make -f apps/bs_tools/CMakeFiles/four2three.dir/build.make apps/bs_tools/CMakeFiles/four2three.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory 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apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build.make apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build.make apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build'. +make[3]: Nothing to be done for 'apps/bs_tools/CMakeFiles/bisar.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build'. +make[3]: Nothing to be done for 'apps/alf/CMakeFiles/alf.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 86%] Built target demo_unassigned_or_unused_minimapper +[ 86%] Built target demo_unassigned_or_unused_tutorials_custim_io_example1 +[ 86%] Built target demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 +make -f apps/mason2/CMakeFiles/mason_genome.dir/build.make apps/mason2/CMakeFiles/mason_genome.dir/depend +[ 86%] Built target demo_unassigned_or_unused_tutorial_file_io_example1 +make -f apps/mason2/CMakeFiles/mason_methylation.dir/build.make apps/mason2/CMakeFiles/mason_methylation.dir/depend +[ 86%] Built target demo_unassigned_or_unused_parse_lm_stellar +make -f apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build.make apps/mason2/CMakeFiles/mason_frag_sequencing.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/dfi/CMakeFiles/dfi.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/gustaf/CMakeFiles/gustaf.dir/build.make apps/gustaf/CMakeFiles/gustaf.dir/build +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_genome.dir/DependInfo.cmake "--color=" +[ 86%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution1 +make -f apps/mason2/CMakeFiles/mason_variator.dir/build.make apps/mason2/CMakeFiles/mason_variator.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build.make apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_methylation.dir/DependInfo.cmake "--color=" +[ 86%] Built target demo_unassigned_or_unused_modifier_nested +[ 86%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings +make -f apps/mason2/CMakeFiles/mason_materializer.dir/build.make apps/mason2/CMakeFiles/mason_materializer.dir/depend +make -f apps/mason2/CMakeFiles/mason_simulator.dir/build.make apps/mason2/CMakeFiles/mason_simulator.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/DependInfo.cmake "--color=" +make -f apps/mason2/CMakeFiles/mason_splicing.dir/build.make apps/mason2/CMakeFiles/mason_splicing.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_variator.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_materializer.dir/DependInfo.cmake "--color=" +make -f apps/mason2/CMakeFiles/mason_tests.dir/build.make apps/mason2/CMakeFiles/mason_tests.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_simulator.dir/DependInfo.cmake "--color=" +Dependencies file "apps/insegt/CMakeFiles/insegt.dir/insegt.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/insegt/CMakeFiles/insegt.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_splicing.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_tests.dir/DependInfo.cmake "--color=" +Dependencies file "apps/insegt/CMakeFiles/insegt.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/insegt/CMakeFiles/insegt.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_genome.dir/mason_genome.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_genome.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_methylation.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_genome.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_genome.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_variator.dir/mason_variator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_variator.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_methylation.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_methylation.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_materializer.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_simulator.dir/mason_simulator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_simulator.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_splicing.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_frag_sequencing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_tests.dir/mason_tests.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_tests.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_variator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_variator.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_materializer.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_materializer.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_simulator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_simulator.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_splicing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_splicing.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_tests.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_tests.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target mason_frag_sequencing +Consolidate compiler generated dependencies of target insegt +Consolidate compiler generated dependencies of target mason_simulator +Consolidate compiler generated dependencies of target fx_fastq_stats +Consolidate compiler generated dependencies of target mason_splicing +Consolidate compiler generated dependencies of target mason_genome +Consolidate compiler generated dependencies of target mason_tests +Consolidate compiler generated dependencies of target gustaf_mate_joining +Consolidate compiler generated dependencies of target mason_methylation +Consolidate compiler generated dependencies of target mason_materializer +Consolidate compiler generated dependencies of target gustaf +Consolidate compiler generated dependencies of target mason_variator +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/mason2/CMakeFiles/mason_simulator.dir/build.make apps/mason2/CMakeFiles/mason_simulator.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build.make apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/gustaf/CMakeFiles/gustaf.dir/build.make apps/gustaf/CMakeFiles/gustaf.dir/build +make -f apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build.make apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build make -f apps/insegt/CMakeFiles/insegt.dir/build.make apps/insegt/CMakeFiles/insegt.dir/build make -f apps/mason2/CMakeFiles/mason_genome.dir/build.make apps/mason2/CMakeFiles/mason_genome.dir/build make -f apps/mason2/CMakeFiles/mason_methylation.dir/build.make apps/mason2/CMakeFiles/mason_methylation.dir/build +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_solution2 make -f apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build.make apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_replace_as make -f apps/mason2/CMakeFiles/mason_variator.dir/build.make apps/mason2/CMakeFiles/mason_variator.dir/build make -f apps/mason2/CMakeFiles/mason_materializer.dir/build.make apps/mason2/CMakeFiles/mason_materializer.dir/build -make -f apps/mason2/CMakeFiles/mason_simulator.dir/build.make apps/mason2/CMakeFiles/mason_simulator.dir/build make -f apps/mason2/CMakeFiles/mason_splicing.dir/build.make apps/mason2/CMakeFiles/mason_splicing.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/bs_tools/CMakeFiles/bisar.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f apps/mason2/CMakeFiles/mason_tests.dir/build.make apps/mason2/CMakeFiles/mason_tests.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/alf/CMakeFiles/alf.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/fiona/CMakeFiles/compute_gain.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/micro_razers/CMakeFiles/micro_razers.dir/build.make apps/micro_razers/CMakeFiles/micro_razers.dir/build -make -f apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/bs_tools/CMakeFiles/casbar.dir/build'. +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/ngs_roi/CMakeFiles/bam2roi.dir/build.make apps/ngs_roi/CMakeFiles/bam2roi.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build -make -f apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build -make -f apps/param_chooser/CMakeFiles/param_chooser.dir/build.make apps/param_chooser/CMakeFiles/param_chooser.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/bs_tools/CMakeFiles/four2three.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/insegt/CMakeFiles/insegt.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_genome.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_methylation.dir/build'. +make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_simulator.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build -make -f apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target four2three make[3]: Nothing to be done for 'apps/gustaf/CMakeFiles/gustaf.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.dir/build +[ 87%] Built target demo_unassigned_or_unused_seeds +[ 87%] Built target demo_unassigned_or_unused_sam2svg +[ 87%] Built target alf +[ 87%] Built target compute_gain +[ 87%] Built target demo_unassigned_or_unused_rooted_iterator +[ 87%] Built target bisar +[ 87%] Built target demo_unassigned_or_unused_tutorial_file_io_mmap_string_example +[ 87%] Built target demo_unassigned_or_unused_tutorials_custim_io_reader_demo +[ 87%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution3 +[ 87%] Built target demo_unassigned_or_unused_tutorials_custim_io_parse_blastn +[ 89%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo +[ 87%] Built target demo_unassigned_or_unused_tutorial_sequence_count_generic_characters make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_materializer.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 87%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution4 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_variator.dir/build'. +make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_methylation.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 87%] Built target demo_unassigned_or_unused_sequence_length +[ 89%] Built target demo_unassigned_or_unused_sample_seqs make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/fiona/CMakeFiles/fiona_illumina.dir/build'. -make -f apps/rabema/CMakeFiles/rabema_do_search.dir/build.make apps/rabema/CMakeFiles/rabema_do_search.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_simulator.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_splicing.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build'. make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/fiona/CMakeFiles/fiona.dir/build'. +make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_materializer.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/micro_razers/CMakeFiles/micro_razers.dir/build'. +make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_variator.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/bs_tools/CMakeFiles/four2three.dir/build.make apps/bs_tools/CMakeFiles/four2three.dir/build +[ 89%] Built target demo_unassigned_or_unused_tutorial_file_io_solution1 +[ 87%] Built target demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build'. +make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_splicing.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 87%] Built target demo_unassigned_or_unused_segmentalignment +[ 87%] Built target demo_unassigned_or_unused_soft_to_hard_masking make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_tests.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/micro_razers/CMakeFiles/micro_razers.dir/build.make apps/micro_razers/CMakeFiles/micro_razers.dir/depend +make -f apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/depend +make -f apps/ngs_roi/CMakeFiles/bam2roi.dir/build.make apps/ngs_roi/CMakeFiles/bam2roi.dir/depend +make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers/CMakeFiles/micro_razers.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/ngs_roi/CMakeFiles/bam2roi.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/DependInfo.cmake "--color=" +make -f apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/depend +make -f apps/param_chooser/CMakeFiles/param_chooser.dir/build.make apps/param_chooser/CMakeFiles/param_chooser.dir/depend +make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/bam2roi.dir/DependInfo.cmake "--color=" +make -f apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make apps/rabema/CMakeFiles/rabema_prepare_sam.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/rabema/CMakeFiles/rabema_evaluate.dir/build'. +make[3]: Nothing to be done for 'apps/bs_tools/CMakeFiles/four2three.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/param_chooser/CMakeFiles/param_chooser.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/DependInfo.cmake "--color=" +make -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/depend +make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.dir/depend +make -f apps/rabema/CMakeFiles/rabema_do_search.dir/build.make apps/rabema/CMakeFiles/rabema_do_search.dir/depend +make -f apps/razers/CMakeFiles/razers.dir/build.make apps/razers/CMakeFiles/razers.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/rabema/CMakeFiles/rabema_do_search.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 89%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo -[ 89%] Built target demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 -[ 89%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings -[ 89%] Built target demo_unassigned_or_unused_tutorials_custim_io_reader_demo -[ 89%] Built target demo_unassigned_or_unused_tutorials_custim_io_parse_blastn -[ 89%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution1 -[ 89%] Built target dfi -[ 89%] Built target demo_unassigned_or_unused_tutorials_custim_io_example1 -[ 90%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution2 -[ 90%] Built target alf -[ 90%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution3 -[ 90%] Built target casbar -make -f apps/razers/CMakeFiles/razers.dir/build.make apps/razers/CMakeFiles/razers.dir/depend -[ 90%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution4 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/param_chooser.dir/DependInfo.cmake "--color=" make -f apps/razers3/CMakeFiles/razers3.dir/build.make apps/razers3/CMakeFiles/razers3.dir/depend -[ 90%] Built target bisar make -f apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build.make apps/razers3/CMakeFiles/razers3_simulate_reads.dir/depend +[ 89%] Built target demo_unassigned_or_unused_tutorial_sequence_count_characters +[ 90%] Built target mason_methylation +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/DependInfo.cmake "--color=" +[ 90%] Built target mason_genome make -f apps/razers3/CMakeFiles/razers3_quality2prob.dir/build.make apps/razers3/CMakeFiles/razers3_quality2prob.dir/depend -[ 90%] Built target fiona +[ 90%] Built target gustaf +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/DependInfo.cmake "--color=" +[ 91%] Built target gustaf_mate_joining +[ 91%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution2 +[ 91%] Built target fx_fastq_stats +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 91%] Built target mason_frag_sequencing +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_evaluate.dir/DependInfo.cmake "--color=" make -f apps/rep_sep/CMakeFiles/rep_sep.dir/build.make apps/rep_sep/CMakeFiles/rep_sep.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers/CMakeFiles/razers.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_do_search.dir/DependInfo.cmake "--color=" +make -f apps/sak/CMakeFiles/sak.dir/build.make apps/sak/CMakeFiles/sak.dir/depend +[ 91%] Built target mason_materializer +make -f apps/sam2matrix/CMakeFiles/sam2matrix.dir/build.make apps/sam2matrix/CMakeFiles/sam2matrix.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3.dir/DependInfo.cmake "--color=" -[ 90%] Built target fiona_illumina make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/DependInfo.cmake "--color=" +[ 91%] Built target mason_variator make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3_quality2prob.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rep_sep /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rep_sep /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rep_sep/CMakeFiles/rep_sep.dir/DependInfo.cmake "--color=" -make -f apps/sak/CMakeFiles/sak.dir/build.make apps/sak/CMakeFiles/sak.dir/depend -[ 90%] Built target fx_bam_coverage -make -f apps/sam2matrix/CMakeFiles/sam2matrix.dir/build.make apps/sam2matrix/CMakeFiles/sam2matrix.dir/depend -[ 90%] Built target compute_gain +[ 91%] Built target mason_simulator make -f apps/samcat/CMakeFiles/samcat.dir/build.make apps/samcat/CMakeFiles/samcat.dir/depend -[ 91%] Built target four2three +[ 91%] Built target insegt make -f apps/searchjoin/CMakeFiles/s4_search.dir/build.make apps/searchjoin/CMakeFiles/s4_search.dir/depend +[ 91%] Built target demo_unassigned_or_unused_tutorial_sequence_replace_as +[ 91%] Built target mason_splicing +make -f apps/searchjoin/CMakeFiles/s4_join.dir/build.make apps/searchjoin/CMakeFiles/s4_join.dir/depend +make -f apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build.make apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rep_sep /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rep_sep /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rep_sep/CMakeFiles/rep_sep.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sak /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sak/CMakeFiles/sak.dir/DependInfo.cmake "--color=" -[ 91%] Built target fx_fastq_stats -make -f apps/searchjoin/CMakeFiles/s4_join.dir/build.make apps/searchjoin/CMakeFiles/s4_join.dir/depend +make -f apps/seqcons2/CMakeFiles/seqcons2.dir/build.make apps/seqcons2/CMakeFiles/seqcons2.dir/depend +make -f apps/sgip/CMakeFiles/sgip.dir/build.make apps/sgip/CMakeFiles/sgip.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sam2matrix /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sam2matrix/CMakeFiles/sam2matrix.dir/DependInfo.cmake "--color=" -[ 91%] Built target mason_variator -[ 91%] Built target gustaf_mate_joining -[ 91%] Built target gustaf +[ 91%] Built target mason_tests make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/samcat /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/samcat/CMakeFiles/samcat.dir/DependInfo.cmake "--color=" -make -f apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build.make apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/depend -[ 91%] Built target insegt -[ 91%] Built target mason_methylation -make -f apps/seqcons2/CMakeFiles/seqcons2.dir/build.make apps/seqcons2/CMakeFiles/seqcons2.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin/CMakeFiles/s4_search.dir/DependInfo.cmake "--color=" -make -f apps/sgip/CMakeFiles/sgip.dir/build.make apps/sgip/CMakeFiles/sgip.dir/depend +make -f apps/snp_store/CMakeFiles/snp_store.dir/build.make apps/snp_store/CMakeFiles/snp_store.dir/depend +Dependencies file "apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/compiler_depend.internal". +Dependencies file "apps/micro_razers/CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers/CMakeFiles/micro_razers.dir/compiler_depend.internal". +make -f apps/splazers/CMakeFiles/splazers.dir/build.make apps/splazers/CMakeFiles/splazers.dir/depend +make -f apps/stellar/CMakeFiles/stellar.dir/build.make apps/stellar/CMakeFiles/stellar.dir/depend +Dependencies file "apps/micro_razers/CMakeFiles/micro_razers.dir/micro_razers.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers/CMakeFiles/micro_razers.dir/compiler_depend.internal". +Dependencies file "apps/ngs_roi/CMakeFiles/bam2roi.dir/bam2roi.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/bam2roi.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin/CMakeFiles/s4_join.dir/DependInfo.cmake "--color=" -make -f apps/snp_store/CMakeFiles/snp_store.dir/build.make apps/snp_store/CMakeFiles/snp_store.dir/depend -[ 92%] Built target mason_frag_sequencing -[ 92%] Built target mason_genome -[ 92%] Built target roi_plot_thumbnails +Dependencies file "apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/compiler_depend.internal". +make -f apps/tree_recon/CMakeFiles/tree_recon.dir/build.make apps/tree_recon/CMakeFiles/tree_recon.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqan_tcoffee /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/DependInfo.cmake "--color=" -make -f apps/splazers/CMakeFiles/splazers.dir/build.make apps/splazers/CMakeFiles/splazers.dir/depend -[ 92%] Built target pair_align_lib +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin/CMakeFiles/s4_search.dir/DependInfo.cmake "--color=" +make -f apps/yara/CMakeFiles/yara_indexer.dir/build.make apps/yara/CMakeFiles/yara_indexer.dir/depend +Dependencies file "apps/micro_razers/CMakeFiles/micro_razers.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers/CMakeFiles/micro_razers.dir/compiler_depend.internal". +make -f apps/yara/CMakeFiles/yara_mapper.dir/build.make apps/yara/CMakeFiles/yara_mapper.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqcons2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqcons2/CMakeFiles/seqcons2.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip/CMakeFiles/sgip.dir/DependInfo.cmake "--color=" -[ 92%] Built target mason_splicing -[ 92%] Built target mason_tests -[ 92%] Built target mason_materializer -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/snp_store/CMakeFiles/snp_store.dir/DependInfo.cmake "--color=" -[ 93%] Built target mason_simulator -[ 93%] Built target micro_razers +Dependencies file "apps/ngs_roi/CMakeFiles/bam2roi.dir/roi_builder.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/bam2roi.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqan_tcoffee /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/DependInfo.cmake "--color=" +[ 92%] Built target four2three make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/splazers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/splazers/CMakeFiles/splazers.dir/DependInfo.cmake "--color=" -make -f apps/stellar/CMakeFiles/stellar.dir/build.make apps/stellar/CMakeFiles/stellar.dir/depend -[ 93%] Built target bam2roi -[ 93%] Built target rabema_evaluate -make -f apps/tree_recon/CMakeFiles/tree_recon.dir/build.make apps/tree_recon/CMakeFiles/tree_recon.dir/depend -make -f apps/yara/CMakeFiles/yara_indexer.dir/build.make apps/yara/CMakeFiles/yara_indexer.dir/depend -[ 94%] Built target test_funcs_param_chooser -[ 94%] Built target roi_feature_projection -make -f apps/yara/CMakeFiles/yara_mapper.dir/build.make apps/yara/CMakeFiles/yara_mapper.dir/depend -make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_align.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip/CMakeFiles/sgip.dir/DependInfo.cmake "--color=" +Dependencies file "apps/ngs_roi/CMakeFiles/bam2roi.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/bam2roi.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/tree_recon /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/tree_recon/CMakeFiles/tree_recon.dir/DependInfo.cmake "--color=" -[ 95%] Built target param_chooser -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara/CMakeFiles/yara_mapper.dir/DependInfo.cmake "--color=" +Dependencies file "apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara/CMakeFiles/yara_indexer.dir/DependInfo.cmake "--color=" -[ 95%] Built target rabema_prepare_sam -[ 95%] Built target rabema_build_gold_standard +Dependencies file "apps/param_chooser/CMakeFiles/param_chooser.dir/param_chooser.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/param_chooser.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/stellar /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/stellar/CMakeFiles/stellar.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/CMakeFiles/pair_align.dir/DependInfo.cmake "--color=" -[ 95%] Built target rabema_do_search -Dependencies file "apps/rep_sep/CMakeFiles/rep_sep.dir/rep_sep.cpp.o.d" is newer than depends file 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+make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/bs_tools/CMakeFiles/casbar.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/fiona/CMakeFiles/fiona.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 92%] Built target roi_plot_thumbnails +[ 92%] Built target pair_align_lib +[ 92%] Built target fx_bam_coverage +[ 92%] Built target casbar +[ 92%] Built target fiona +[ 92%] Built target dfi +make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_align.dir/depend Consolidate compiler generated dependencies of target sgip +Consolidate compiler generated dependencies of target rabema_prepare_sam +Consolidate compiler generated dependencies of target seqan_tcoffee +Consolidate compiler generated dependencies of target s4_search Consolidate compiler generated dependencies of target rep_sep -Consolidate compiler generated dependencies of target snp_store +Consolidate compiler generated dependencies of target s4_join +Consolidate compiler generated dependencies of target yara_mapper +Consolidate compiler generated dependencies of target samcat +Consolidate compiler generated dependencies of target razers3_quality2prob +Consolidate compiler generated dependencies of target stellar +Consolidate compiler generated dependencies of target tree_recon Consolidate compiler generated dependencies of target sak +Consolidate compiler generated dependencies of target snp_store +Consolidate compiler generated dependencies of target rabema_build_gold_standard +Consolidate compiler generated dependencies of target rabema_evaluate +Consolidate compiler generated dependencies of target splazers +Consolidate compiler generated dependencies of target test_funcs_param_chooser Consolidate compiler generated dependencies of target sam2matrix -Consolidate compiler generated dependencies of target seqan_tcoffee -Consolidate compiler generated dependencies of target tree_recon -Consolidate compiler generated dependencies of target razers3_simulate_reads -Consolidate compiler generated dependencies of target seqcons2 -Consolidate compiler generated dependencies of target s4_join +Consolidate compiler generated dependencies of target yara_indexer Consolidate compiler generated dependencies of target razers3 -Consolidate compiler generated dependencies of target razers3_quality2prob -Consolidate compiler generated dependencies of target s4_search -Consolidate compiler generated dependencies of target razers -Consolidate compiler generated dependencies of target pair_align +Consolidate compiler generated dependencies of target roi_feature_projection +Consolidate compiler generated dependencies of target seqcons2 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/CMakeFiles/pair_align.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/yara/CMakeFiles/yara_mapper.dir/build.make apps/yara/CMakeFiles/yara_mapper.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/searchjoin/CMakeFiles/s4_search.dir/build.make apps/searchjoin/CMakeFiles/s4_search.dir/build +Consolidate compiler generated dependencies of target razers3_simulate_reads make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/searchjoin/CMakeFiles/s4_join.dir/build.make apps/searchjoin/CMakeFiles/s4_join.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/yara/CMakeFiles/yara_mapper.dir/build.make apps/yara/CMakeFiles/yara_mapper.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/razers3/CMakeFiles/razers3_quality2prob.dir/build.make apps/razers3/CMakeFiles/razers3_quality2prob.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build.make apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build -make -f apps/razers/CMakeFiles/razers.dir/build.make apps/razers/CMakeFiles/razers.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/rep_sep/CMakeFiles/rep_sep.dir/build.make apps/rep_sep/CMakeFiles/rep_sep.dir/build +make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/param_chooser/CMakeFiles/param_chooser.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build +make -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build +make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/micro_razers/CMakeFiles/micro_razers.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f apps/razers3/CMakeFiles/razers3.dir/build.make apps/razers3/CMakeFiles/razers3.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/ngs_roi/CMakeFiles/bam2roi.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build.make apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build +make -f apps/razers3/CMakeFiles/razers3_quality2prob.dir/build.make apps/razers3/CMakeFiles/razers3_quality2prob.dir/build +make -f apps/rep_sep/CMakeFiles/rep_sep.dir/build.make apps/rep_sep/CMakeFiles/rep_sep.dir/build make -f apps/sak/CMakeFiles/sak.dir/build.make apps/sak/CMakeFiles/sak.dir/build make -f apps/sam2matrix/CMakeFiles/sam2matrix.dir/build.make apps/sam2matrix/CMakeFiles/sam2matrix.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/searchjoin/CMakeFiles/s4_search.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f apps/samcat/CMakeFiles/samcat.dir/build.make apps/samcat/CMakeFiles/samcat.dir/build -make -f apps/searchjoin/CMakeFiles/s4_search.dir/build.make apps/searchjoin/CMakeFiles/s4_search.dir/build -make -f apps/searchjoin/CMakeFiles/s4_join.dir/build.make apps/searchjoin/CMakeFiles/s4_join.dir/build make -f apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build.make apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/rabema/CMakeFiles/rabema_do_search.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f apps/seqcons2/CMakeFiles/seqcons2.dir/build.make apps/seqcons2/CMakeFiles/seqcons2.dir/build make -f apps/sgip/CMakeFiles/sgip.dir/build.make apps/sgip/CMakeFiles/sgip.dir/build make -f apps/snp_store/CMakeFiles/snp_store.dir/build.make apps/snp_store/CMakeFiles/snp_store.dir/build +make -f apps/splazers/CMakeFiles/splazers.dir/build.make apps/splazers/CMakeFiles/splazers.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/yara/CMakeFiles/yara_mapper.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f apps/stellar/CMakeFiles/stellar.dir/build.make apps/stellar/CMakeFiles/stellar.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/searchjoin/CMakeFiles/s4_join.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f apps/tree_recon/CMakeFiles/tree_recon.dir/build.make apps/tree_recon/CMakeFiles/tree_recon.dir/build -make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_align.dir/build +make -f apps/yara/CMakeFiles/yara_indexer.dir/build.make apps/yara/CMakeFiles/yara_indexer.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build'. -make[3]: Nothing to be done for 'apps/razers3/CMakeFiles/razers3_quality2prob.dir/build'. +make[3]: Nothing to be done for 'apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/yara/CMakeFiles/yara_mapper.dir/build'. +make[3]: Nothing to be done for 'apps/fiona/CMakeFiles/fiona_illumina.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/rep_sep/CMakeFiles/rep_sep.dir/build'. +make[3]: Nothing to be done for 'apps/rabema/CMakeFiles/rabema_evaluate.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/sak/CMakeFiles/sak.dir/build'. +make[3]: Nothing to be done for 'apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/razers/CMakeFiles/razers.dir/build'. +make[3]: Nothing to be done for 'apps/rep_sep/CMakeFiles/rep_sep.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/sam2matrix/CMakeFiles/sam2matrix.dir/build'. +make[3]: Nothing to be done for 'apps/sak/CMakeFiles/sak.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/samcat/CMakeFiles/samcat.dir/build'. +make[3]: Nothing to be done for 'apps/razers3/CMakeFiles/razers3_quality2prob.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/sgip/CMakeFiles/sgip.dir/build'. +make[3]: Nothing to be done for 'apps/samcat/CMakeFiles/samcat.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/searchjoin/CMakeFiles/s4_search.dir/build'. +make[3]: Nothing to be done for 'apps/sam2matrix/CMakeFiles/sam2matrix.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/razers3/CMakeFiles/razers3.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "apps/pair_align/CMakeFiles/pair_align.dir/pair_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/CMakeFiles/pair_align.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/searchjoin/CMakeFiles/s4_join.dir/build'. +make[3]: Nothing to be done for 'apps/sgip/CMakeFiles/sgip.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build'. +make[3]: Nothing to be done for 'apps/razers3/CMakeFiles/razers3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/tree_recon/CMakeFiles/tree_recon.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/seqcons2/CMakeFiles/seqcons2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/stellar/CMakeFiles/stellar.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/CMakeFiles/pair_align.dir/build'. +make[3]: Nothing to be done for 'apps/yara/CMakeFiles/yara_indexer.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/snp_store/CMakeFiles/snp_store.dir/build'. +make[3]: Nothing to be done for 'apps/splazers/CMakeFiles/splazers.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/seqcons2/CMakeFiles/seqcons2.dir/build'. +make[3]: Nothing to be done for 'apps/snp_store/CMakeFiles/snp_store.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 97%] Built target rep_sep -[ 97%] Built target razers -[ 97%] Built target yara_mapper -[ 97%] Built target sak -[ 97%] Built target razers3_simulate_reads -[ 97%] Built target razers3_quality2prob +[ 93%] Built target tree_recon +Consolidate compiler generated dependencies of target razers +[ 93%] Built target razers3 +[ 94%] Built target param_chooser +[ 98%] Built target snp_store +[ 93%] Built target rabema_do_search +[ 93%] Built target razers3_quality2prob +[ 93%] Built target razers3_simulate_reads +[ 93%] Built target s4_join +[ 93%] Built target seqan_tcoffee +[ 93%] Built target samcat +[ 93%] Built target rabema_build_gold_standard +[ 93%] Built target s4_search +[ 93%] Built target yara_indexer +[ 93%] Built target rabema_prepare_sam +[ 93%] Built target rabema_evaluate +[ 93%] Built target sgip +[ 93%] Built target rep_sep +[ 98%] Built target micro_razers +[ 93%] Built target fiona_illumina +[ 93%] Built target splazers +[ 93%] Built target bam2roi +[ 93%] Built target sak +[ 93%] Built target test_funcs_param_chooser +[ 93%] Built target stellar +[ 96%] Built target yara_mapper [ 98%] Built target sam2matrix -[ 98%] Built target s4_search -[ 98%] Built target s4_join -[ 98%] Built target samcat -[ 98%] Built target seqan_tcoffee -[ 98%] Built target sgip -[ 98%] Built target razers3 -[ 98%] Built target tree_recon -[ 98%] Built target pair_align -[ 98%] Built target stellar -[100%] Built target snp_store -[100%] Built target seqcons2 -Consolidate compiler generated dependencies of target yara_indexer -Consolidate compiler generated dependencies of target splazers -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/yara/CMakeFiles/yara_indexer.dir/build.make apps/yara/CMakeFiles/yara_indexer.dir/build +[ 93%] Built target seqcons2 +Dependencies file "apps/pair_align/CMakeFiles/pair_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/CMakeFiles/pair_align.dir/compiler_depend.internal". +[ 98%] Built target roi_feature_projection make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/splazers/CMakeFiles/splazers.dir/build.make apps/splazers/CMakeFiles/splazers.dir/build +make -f apps/razers/CMakeFiles/razers.dir/build.make apps/razers/CMakeFiles/razers.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/yara/CMakeFiles/yara_indexer.dir/build'. +make[3]: Nothing to be done for 'apps/razers/CMakeFiles/razers.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[100%] Built target razers +Consolidate compiler generated dependencies of target pair_align make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_align.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/splazers/CMakeFiles/splazers.dir/build'. +make[3]: Nothing to be done for 'apps/pair_align/CMakeFiles/pair_align.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[100%] Built target yara_indexer -[100%] Built target splazers +[100%] Built target pair_align make[2]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' dh_auto_test - cd obj-x86_64-linux-gnu && make -j42 test ARGS\+=--verbose ARGS\+=-j42 + cd obj-x86_64-linux-gnu && make -j40 test ARGS\+=--verbose ARGS\+=-j40 make[1]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' Running tests... -/usr/bin/ctest --force-new-ctest-process --verbose -j42 +/usr/bin/ctest --force-new-ctest-process --verbose -j40 UpdateCTestConfiguration from :/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu @@ -299693,18 +299729,6 @@ 40: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_iterator 40: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic 40: Test timeout computed to be: 10000000 -test 41 - Start 41: test_test_bed_io - -41: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_bed_io -41: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io -41: Test timeout computed to be: 10000000 -test 42 - Start 42: test_blast - -42: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_blast -42: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast -42: Test timeout computed to be: 10000000 1: TEST SUITE test_align 1: SEQAN_ENABLE_DEBUG == 1 1: SEQAN_ENABLE_TESTING == 1 @@ -300540,6 +300564,17 @@ 16: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK 16: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK 16: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +16: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +16: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK +16: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +16: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +16: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +16: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK +16: ************************************** +16: Total Tests: 12 +16: Skipped: 0 +16: Errors: 0 +16: ************************************** 17: TEST SUITE tests 17: SEQAN_ENABLE_DEBUG == 1 17: SEQAN_ENABLE_TESTING == 1 @@ -300552,6 +300587,28 @@ 17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK 17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK 17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK +17: ************************************** +17: Total Tests: 24 +17: Skipped: 0 +17: Errors: 0 +17: ************************************** 18: TEST SUITE tests 18: SEQAN_ENABLE_DEBUG == 1 18: SEQAN_ENABLE_TESTING == 1 @@ -300564,24 +300621,66 @@ 18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK 18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK 18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK +18: ************************************** +18: Total Tests: 24 +18: Skipped: 0 +18: Errors: 0 +18: ************************************** 19: TEST SUITE test_align_parallel_algorithm 19: SEQAN_ENABLE_DEBUG == 1 19: SEQAN_ENABLE_TESTING == 1 19: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 19: SEQAN_ASYNC_IO == 1 19: test_align_parallel_wavefront_single_global_alignment OK +19: test_align_parallel_wavefront_multiple_global_alignment OK +19: ************************************** +19: Total Tests: 2 +19: Skipped: 0 +19: Errors: 0 +19: ************************************** 20: TEST SUITE test_align_parallel_algorithm 20: SEQAN_ENABLE_DEBUG == 1 20: SEQAN_ENABLE_TESTING == 1 20: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 20: SEQAN_ASYNC_IO == 1 20: test_align_parallel_wavefront_single_global_alignment OK +20: test_align_parallel_wavefront_multiple_global_alignment OK +20: test_align_parallel_wavefront_multiple_global_alignment_simd OK +20: ************************************** +20: Total Tests: 3 +20: Skipped: 0 +20: Errors: 0 +20: ************************************** 21: TEST SUITE test_align_parallel_algorithm 21: SEQAN_ENABLE_DEBUG == 1 21: SEQAN_ENABLE_TESTING == 1 21: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 21: SEQAN_ASYNC_IO == 1 21: test_align_parallel_wavefront_single_global_alignment OK +21: test_align_parallel_wavefront_multiple_global_alignment OK +21: test_align_parallel_wavefront_multiple_global_alignment_simd OK +21: ************************************** +21: Total Tests: 3 +21: Skipped: 0 +21: Errors: 0 +21: ************************************** 22: TEST SUITE test_align_profile 22: SEQAN_ENABLE_DEBUG == 1 22: SEQAN_ENABLE_TESTING == 1 @@ -300631,6 +300730,10 @@ 24: test_alignment_free_d2_dna5 OK 24: test_alignment_free_d2star_dna5 OK 24: test_alignment_free_d2z_dna5 OK +24: test_alignment_free_n2_dna5 OK +24: test_alignment_free_calculate_probability OK +24: test_alignment_free_calculate_variance OK +24: test_alignment_free_calculate_covariance OK 25: TEST SUITE test_arg_parse 25: SEQAN_ENABLE_DEBUG == 1 25: SEQAN_ENABLE_TESTING == 1 @@ -301006,30 +301109,46 @@ 32: Skipped: 0 32: Errors: 0 32: ************************************** - 1/415 Test #1: test_test_align ................................................................... Passed 0.17 sec - 2/415 Test #2: test_test_align_simd_global_equal_length .......................................... Passed 0.17 sec - 3/415 Test #3: test_test_align_simd_global_equal_length_sse4_host ................................ Passed 0.17 sec - 4/415 Test #4: test_test_align_simd_global_equal_length_avx2_host ................................ Passed 0.16 sec - 5/415 Test #5: test_test_align_simd_global_variable_length ....................................... Passed 0.16 sec - 6/415 Test #6: test_test_align_simd_global_variable_length_sse4_host ............................. Passed 0.16 sec - 7/415 Test #7: test_test_align_simd_global_variable_length_avx2_host ............................. Passed 0.16 sec - 8/415 Test #8: test_test_align_simd_local_equal_length ........................................... Passed 0.16 sec - 9/415 Test #9: test_test_align_simd_local_equal_length_sse4_host ................................. Passed 0.16 sec - 10/415 Test #10: test_test_align_simd_local_equal_length_avx2_host ................................. Passed 0.15 sec - 11/415 Test #11: test_test_align_simd_local_variable_length ........................................ Passed 0.15 sec - 12/415 Test #12: test_test_align_simd_local_variable_length_sse4_host .............................. Passed 0.15 sec - 13/415 Test #13: test_test_align_simd_local_variable_length_avx2_host .............................. Passed 0.13 sec - 14/415 Test #14: test_test_align_extend ............................................................ Passed 0.13 sec - 15/415 Test #15: test_align_parallel_data_structures ............................................... Passed 0.13 sec - 16/415 Test #22: test_test_align_profile ........................................................... Passed 0.11 sec - 17/415 Test #23: test_test_align_split ............................................................. Passed 0.11 sec - 18/415 Test #25: test_test_arg_parse ............................................................... Passed 0.11 sec - 19/415 Test #26: test_test_arg_parse_version_check ................................................. Passed 0.11 sec - 20/415 Test #28: test_test_basic_exception ......................................................... Passed 0.10 sec - 21/415 Test #29: test_test_basic_metaprogramming ................................................... Passed 0.10 sec - 22/415 Test #30: test_test_basic_fundamental ....................................................... Passed 0.10 sec - 23/415 Test #31: test_test_basic_concept ........................................................... Passed 0.10 sec - 24/415 Test #32: test_test_basic_alphabet .......................................................... Passed 0.10 sec + 1/415 Test #1: test_test_align ................................................................... Passed 0.65 sec + 2/415 Test #2: test_test_align_simd_global_equal_length .......................................... Passed 0.79 sec + 3/415 Test #3: test_test_align_simd_global_equal_length_sse4_host ................................ Passed 0.79 sec + 4/415 Test #4: test_test_align_simd_global_equal_length_avx2_host ................................ Passed 0.78 sec + 5/415 Test #5: test_test_align_simd_global_variable_length ....................................... Passed 0.78 sec + 6/415 Test #6: test_test_align_simd_global_variable_length_sse4_host ............................. Passed 0.78 sec + 7/415 Test #7: test_test_align_simd_global_variable_length_avx2_host ............................. Passed 0.78 sec + 8/415 Test #8: test_test_align_simd_local_equal_length ........................................... Passed 0.78 sec + 9/415 Test #9: test_test_align_simd_local_equal_length_sse4_host ................................. Passed 0.78 sec + 10/415 Test #10: test_test_align_simd_local_equal_length_avx2_host ................................. Passed 0.78 sec + 11/415 Test #11: test_test_align_simd_local_variable_length ........................................ Passed 0.60 sec + 12/415 Test #12: test_test_align_simd_local_variable_length_sse4_host .............................. Passed 0.55 sec + 13/415 Test #13: test_test_align_simd_local_variable_length_avx2_host .............................. Passed 0.55 sec + 14/415 Test #14: test_test_align_extend ............................................................ Passed 0.55 sec + 15/415 Test #15: test_align_parallel_data_structures ............................................... Passed 0.55 sec + 16/415 Test #16: test_test_align_parallel_interface ................................................ Passed 0.55 sec + 17/415 Test #17: test_test_align_parallel_interface_sse4_host ...................................... Passed 0.54 sec + 18/415 Test #18: test_test_align_parallel_interface_avx2_host ...................................... Passed 0.54 sec + 19/415 Test #19: test_test_align_parallel_algorithm ................................................ Passed 0.54 sec + 20/415 Test #22: test_test_align_profile ........................................................... Passed 0.53 sec + 21/415 Test #23: test_test_align_split ............................................................. Passed 0.53 sec + 22/415 Test #25: test_test_arg_parse ............................................................... Passed 0.53 sec + 23/415 Test #26: test_test_arg_parse_version_check ................................................. Passed 0.53 sec + 24/415 Test #28: test_test_basic_exception ......................................................... Passed 0.37 sec + 25/415 Test #29: test_test_basic_metaprogramming ................................................... Passed 0.30 sec + 26/415 Test #30: test_test_basic_fundamental ....................................................... Passed 0.29 sec + 27/415 Test #31: test_test_basic_concept ........................................................... Passed 0.29 sec + 28/415 Test #32: test_test_basic_alphabet .......................................................... Passed 0.29 sec +test 41 + Start 41: test_test_bed_io + +41: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_bed_io +41: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io +41: Test timeout computed to be: 10000000 +test 42 + Start 42: test_blast + +42: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_blast +42: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast +42: Test timeout computed to be: 10000000 test 43 Start 43: test_test_consensus @@ -301174,43 +301293,32 @@ 66: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_base 66: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index 66: Test timeout computed to be: 10000000 -16: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -16: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK -16: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -16: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -16: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -16: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK -16: ************************************** -16: Total Tests: 12 -16: Skipped: 0 -16: Errors: 0 -16: ************************************** -17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +test 67 + Start 67: test_test_index_fm + +67: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_fm +67: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +67: Test timeout computed to be: 10000000 +test 68 + Start 68: test_test_index_bifm + +68: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_bifm +68: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +68: Test timeout computed to be: 10000000 + 29/415 Test #20: test_test_align_parallel_algorithm_sse4_host ...................................... Passed 0.89 sec + 30/415 Test #21: test_test_align_parallel_algorithm_avx2_host ...................................... Passed 0.89 sec +24: test_alignment_free_alignment_free_comparison OK +24: test_alignment_free_count_kmers OK +24: test_alignment_free_calculate_periodicity OK +24: test_alignment_free_calculate_overlap_indicator OK +24: test_alignment_free_string_to_string_set OK +24: test_alignment_free_cut_ns OK +24: ************************************** +24: Total Tests: 14 +24: Skipped: 0 +24: Errors: 0 +24: ************************************** + 31/415 Test #24: test_test_alignment_free .......................................................... Passed 0.89 sec 33: TEST SUITE test_basic_aggregate 33: SEQAN_ENABLE_DEBUG == 1 33: SEQAN_ENABLE_TESTING == 1 @@ -301311,7 +301419,7 @@ 33: Skipped: 0 33: Errors: 0 33: ************************************** - 25/415 Test #33: test_test_basic_aggregate ......................................................... Passed 0.16 sec + 32/415 Test #33: test_test_basic_aggregate ......................................................... Passed 0.65 sec 34: TEST SUITE test_basic_allocator 34: SEQAN_ENABLE_DEBUG == 1 34: SEQAN_ENABLE_TESTING == 1 @@ -301326,7 +301434,7 @@ 34: Skipped: 0 34: Errors: 0 34: ************************************** - 26/415 Test #34: test_test_basic_allocator ......................................................... Passed 0.16 sec + 33/415 Test #34: test_test_basic_allocator ......................................................... Passed 0.65 sec 35: TEST SUITE test_basic_parallelism 35: SEQAN_ENABLE_DEBUG == 1 35: SEQAN_ENABLE_TESTING == 1 @@ -301338,7 +301446,7 @@ 35: Skipped: 0 35: Errors: 0 35: ************************************** - 27/415 Test #35: test_test_basic_parallelism ....................................................... Passed 0.16 sec + 34/415 Test #35: test_test_basic_parallelism ....................................................... Passed 0.65 sec 36: TEST SUITE test_basic_math 36: SEQAN_ENABLE_DEBUG == 1 36: SEQAN_ENABLE_TESTING == 1 @@ -301354,7 +301462,7 @@ 36: Skipped: 0 36: Errors: 0 36: ************************************** - 28/415 Test #36: test_test_basic_math .............................................................. Passed 0.16 sec + 35/415 Test #36: test_test_basic_math .............................................................. Passed 0.64 sec 37: TEST SUITE test_basic_smart_pointer 37: SEQAN_ENABLE_DEBUG == 1 37: SEQAN_ENABLE_TESTING == 1 @@ -301377,7 +301485,7 @@ 37: Skipped: 0 37: Errors: 0 37: ************************************** - 29/415 Test #37: test_test_basic_smart_pointer ..................................................... Passed 0.16 sec + 36/415 Test #37: test_test_basic_smart_pointer ..................................................... Passed 0.64 sec 38: TEST SUITE test_basic_container 38: SEQAN_ENABLE_DEBUG == 1 38: SEQAN_ENABLE_TESTING == 1 @@ -301388,7 +301496,7 @@ 38: Skipped: 0 38: Errors: 0 38: ************************************** - 30/415 Test #38: test_test_basic_container ......................................................... Passed 0.16 sec + 37/415 Test #38: test_test_basic_container ......................................................... Passed 0.52 sec 39: TEST SUITE test_basic_proxy 39: SEQAN_ENABLE_DEBUG == 1 39: SEQAN_ENABLE_TESTING == 1 @@ -301405,7 +301513,7 @@ 39: Skipped: 0 39: Errors: 0 39: ************************************** - 31/415 Test #39: test_test_basic_proxy ............................................................. Passed 0.16 sec + 38/415 Test #39: test_test_basic_proxy ............................................................. Passed 0.51 sec 40: TEST SUITE test_basic_iterator 40: SEQAN_ENABLE_DEBUG == 1 40: SEQAN_ENABLE_TESTING == 1 @@ -301448,7 +301556,73 @@ 40: Skipped: 0 40: Errors: 0 40: ************************************** - 32/415 Test #40: test_test_basic_iterator .......................................................... Passed 0.16 sec + 39/415 Test #40: test_test_basic_iterator .......................................................... Passed 0.52 sec +test 69 + Start 69: test_test_index_vstree + +69: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_vstree +69: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +69: Test timeout computed to be: 10000000 +test 70 + Start 70: test_test_index_stree_iterators + +70: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_stree_iterators +70: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +70: Test timeout computed to be: 10000000 +test 71 + Start 71: test_test_index_view + +71: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_view +71: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +71: Test timeout computed to be: 10000000 +test 72 + Start 72: test_test_index_finder + +72: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_finder +72: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +72: Test timeout computed to be: 10000000 +test 73 + Start 73: test_test_find_backtracking + +73: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_find_backtracking +73: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +73: Test timeout computed to be: 10000000 +test 74 + Start 74: test_test_index_repeats + +74: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_repeats +74: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +74: Test timeout computed to be: 10000000 +test 75 + Start 75: test_test_journaled_set + +75: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_set +75: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set +75: Test timeout computed to be: 10000000 +test 76 + Start 76: test_test_journaled_string_tree + +76: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_string_tree +76: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree +76: Test timeout computed to be: 10000000 +test 77 + Start 77: test_test_delta_map + +77: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_delta_map +77: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree +77: Test timeout computed to be: 10000000 +test 78 + Start 78: test_journaled_string_tree_traverser + +78: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_string_tree_traverser +78: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree +78: Test timeout computed to be: 10000000 +test 79 + Start 79: test_journaled_string_tree_find + +79: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_string_tree_find +79: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree +79: Test timeout computed to be: 10000000 41: TEST SUITE test_bed_io 41: SEQAN_ENABLE_DEBUG == 1 41: SEQAN_ENABLE_TESTING == 1 @@ -301473,7 +301647,6 @@ 41: Skipped: 0 41: Errors: 0 41: ************************************** - 33/415 Test #41: test_test_bed_io .................................................................. Passed 0.15 sec 42: TEST SUITE test_blast 42: SEQAN_ENABLE_DEBUG == 1 42: SEQAN_ENABLE_TESTING == 1 @@ -301519,77 +301692,6 @@ 42: Skipped: 0 42: Errors: 0 42: ************************************** - 34/415 Test #42: test_blast ........................................................................ Passed 0.15 sec -test 67 - Start 67: test_test_index_fm - -67: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_fm -67: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -67: Test timeout computed to be: 10000000 -test 68 - Start 68: test_test_index_bifm - -68: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_bifm -68: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -68: Test timeout computed to be: 10000000 -test 69 - Start 69: test_test_index_vstree - -69: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_vstree -69: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -69: Test timeout computed to be: 10000000 -test 70 - Start 70: test_test_index_stree_iterators - -70: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_stree_iterators -70: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -70: Test timeout computed to be: 10000000 -test 71 - Start 71: test_test_index_view - -71: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_view -71: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -71: Test timeout computed to be: 10000000 -test 72 - Start 72: test_test_index_finder - -72: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_finder -72: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -72: Test timeout computed to be: 10000000 -test 73 - Start 73: test_test_find_backtracking - -73: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_find_backtracking -73: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -73: Test timeout computed to be: 10000000 -test 74 - Start 74: test_test_index_repeats - -74: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_repeats -74: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -74: Test timeout computed to be: 10000000 -test 75 - Start 75: test_test_journaled_set - -75: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_set -75: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set -75: Test timeout computed to be: 10000000 -test 76 - Start 76: test_test_journaled_string_tree - -76: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_string_tree -76: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree -76: Test timeout computed to be: 10000000 -24: test_alignment_free_n2_dna5 OK -24: test_alignment_free_calculate_probability OK -24: test_alignment_free_calculate_variance OK -24: test_alignment_free_calculate_covariance OK -19: test_align_parallel_wavefront_multiple_global_alignment OK -19: ************************************** -19: Total Tests: 2 -19: Skipped: 0 -19: Errors: 0 -19: ************************************** 43: TEST SUITE test_consensus 43: SEQAN_ENABLE_DEBUG == 1 43: SEQAN_ENABLE_TESTING == 1 @@ -301626,12 +301728,62 @@ 44: SEQAN_ASYNC_IO == 1 44: test_consensus_consensus_alignment_coordinates OK 44: test_consensus_consensus_alignment_contig_ids OK +44: test_consensus_consensus_alignment_no_contig_ids OK +44: test_consensus_consensus_alignment_global_alignment OK +44: ************************************** +44: Total Tests: 4 +44: Skipped: 0 +44: Errors: 0 +44: ************************************** 45: TEST SUITE test_find 45: SEQAN_ENABLE_DEBUG == 1 45: SEQAN_ENABLE_TESTING == 1 45: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 45: SEQAN_ASYNC_IO == 1 45: test_myers_find_begin OK +45: test_myers_find_banded OK +45: test_myers_find_banded_csp OK +45: test_myers_find_infix_find_begin_at_start OK +45: test_myers_find_infix_find_begin_within OK +45: test_find_on_segments OK +45: test_find_hamming_simple OK +45: test_find_hamming_simple_regression_rmbench OK +45: test_regression_rmbench OK +45: test_find_online_Simple OK +45: test_find_online_Horspool OK +45: test_find_online_ShiftAnd OK +45: test_find_online_ShiftOr OK +45: test_find_online_BndmAlgo OK +45: test_find_online_BFAM_Oracle OK +45: test_find_online_BFAM_Trie OK +45: test_find_online_wildcards OK +45: test_find_online_multi_AhoCorasick OK +45: test_find_online_multi_MultipleShiftAnd OK +45: test_find_online_multi_SetHorspool OK +45: test_find_online_multi_WuManber OK +45: test_find_online_multi_MultiBFAM_Oracle OK +45: test_find_online_multi_MultiBFAM_Trie OK +45: test_find_approx_prefix_edit_dist_dpsearch OK +45: test_approx_prefix_edit_dist_myers OK +45: test_approx_edit_dist_dp_search_simple_score OK +45: test_approx_edit_dist_myers OK +45: test_approx_edit_dp_search_simple_score_legacy_case OK +45: test_approx_edit_dist_abndm_algo OK +45: test_approx_edit_dist_pex_non_hierarchical OK +45: test_approx_edit_dist_pex_hierarchical OK +45: test_approx_edit_dist_pex_non_hierarchical_aho_corasick OK +45: test_approx_edit_dist_pex_non_hierarchical_multi_bfam OK +45: test_find_hamming_simple OK +45: test_pattern_copycon OK +45: test_pattern_assign OK +45: test_pattern_movecon OK +45: test_pattern_moveassign OK +45: test_pattern_set_host OK +45: ************************************** +45: Total Tests: 39 +45: Skipped: 0 +45: Errors: 0 +45: ************************************** 46: TEST SUITE test_gff_io 46: SEQAN_ENABLE_DEBUG == 1 46: SEQAN_ENABLE_TESTING == 1 @@ -301713,6 +301865,10 @@ 49: test_graph_msa_guide_tree_neighbour_joining OK 49: test_graph_msa_guide_tree_upgma_weight_avg OK 49: test_graph_msa_guide_tree_upgma_avg OK +49: test_graph_msa_guide_tree_upgma_min OK +49: test_graph_msa_guide_tree_upgma_max OK +49: test_distances OK +49: test_libraries OK 50: TEST SUITE test_graph_types_property_map 50: SEQAN_ENABLE_DEBUG == 1 50: SEQAN_ENABLE_TESTING == 1 @@ -301796,6 +301952,12 @@ 55: testIndexModifiedStringViewEsa OK 55: testIndexModifiedStringViewFM OK 55: testIssue519 OK +55: testIndexCreation OK +55: ************************************** +55: Total Tests: 6 +55: Skipped: 0 +55: Errors: 0 +55: ************************************** 56: TEST SUITE test_index 56: SEQAN_ENABLE_DEBUG == 1 56: SEQAN_ENABLE_TESTING == 1 @@ -301824,12 +301986,6 @@ 58: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 58: SEQAN_ASYNC_IO == 1 58: testIndexCrossCompareDna OK -58: testIndexCrossCompareDnaStrings OK -58: ************************************** -58: Total Tests: 2 -58: Skipped: 0 -58: Errors: 0 -58: ************************************** 59: TEST SUITE test_index 59: SEQAN_ENABLE_DEBUG == 1 59: SEQAN_ENABLE_TESTING == 1 @@ -301851,15 +302007,15 @@ 60: testUngappedShapes OK 60: testUngappedQGramIndex OK 60: start -60: scan took 1.6408e-05 seconds. +60: scan took 8.52003e-06 seconds. 60: start write -60: writing took 1.0343e-05 seconds. -60: reading took 6.62985e-07 seconds. +60: writing took 4.41098e-06 seconds. +60: reading took 4.33996e-07 seconds. 60: start -60: scan took 9.796e-06 seconds. +60: scan took 8.12701e-06 seconds. 60: start write -60: writing took 3.21801e-06 seconds. -60: reading took 5.61995e-07 seconds. +60: writing took 1.84402e-06 seconds. +60: reading took 3.63041e-07 seconds. 60: testUngappedQGramIndexMulti OK 60: testQGramFind OK 60: ************************************** @@ -301995,6 +302151,111 @@ 64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 1u, 1u> > > OK 64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK 64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 1u, 0u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 0u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK 65: TEST SUITE test_fm_index_sparse_string 65: SEQAN_ENABLE_DEBUG == 1 65: SEQAN_ENABLE_TESTING == 1 @@ -302019,42 +302280,39 @@ 66: IndexTest_IndexCreate type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK 66: IndexTest_IndexCreate type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK 66: IndexTest_IndexCreate type parameter seqan::Index >, seqan::FMIndex > > OK - 35/415 Test #16: test_test_align_parallel_interface ................................................ Passed 0.27 sec - 36/415 Test #19: test_test_align_parallel_algorithm ................................................ Passed 0.26 sec - 37/415 Test #43: test_test_consensus ............................................................... Passed 0.14 sec - 38/415 Test #46: test_test_gff_io .................................................................. Passed 0.13 sec - 39/415 Test #47: test_test_graph_algorithms ........................................................ Passed 0.13 sec - 40/415 Test #48: test_test_graph_align ............................................................. Passed 0.13 sec - 41/415 Test #50: test_test_graph_types_property_map ................................................ Passed 0.12 sec - 42/415 Test #51: test_test_graph_types_derived ..................................................... Passed 0.12 sec - 43/415 Test #52: test_test_graph_types_iterators ................................................... Passed 0.12 sec - 44/415 Test #53: test_test_graph_types_types ....................................................... Passed 0.12 sec - 45/415 Test #54: test_test_graph_types_utils ....................................................... Passed 0.12 sec - 46/415 Test #56: test_test_index_crosscompare_char ................................................. Passed 0.11 sec - 47/415 Test #57: test_test_index_crosscompare_char_dfi ............................................. Passed 0.11 sec - 48/415 Test #59: test_test_index_crosscompare_dna_dfi .............................................. Passed 0.10 sec - 49/415 Test #60: test_test_index_qgram ............................................................. Passed 0.10 sec - 50/415 Test #62: test_test_index_shapes ............................................................ Passed 0.09 sec - 51/415 Test #63: test_test_index_drawing ........................................................... Passed 0.09 sec - 52/415 Test #65: test_test_index_fm_sparse_string .................................................. Passed 0.08 sec -test 77 - Start 77: test_test_delta_map - -77: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_delta_map -77: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree -77: Test timeout computed to be: 10000000 -test 78 - Start 78: test_journaled_string_tree_traverser - -78: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_string_tree_traverser -78: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree -78: Test timeout computed to be: 10000000 -test 79 - Start 79: test_journaled_string_tree_find - -79: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_string_tree_find -79: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree -79: Test timeout computed to be: 10000000 +67: TEST SUITE tests +67: SEQAN_ENABLE_DEBUG == 1 +67: SEQAN_ENABLE_TESTING == 1 +67: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +67: SEQAN_ASYNC_IO == 1 +67: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +67: LFTest_IsSentinel type parameter seqan::Index >, seqan::FMIndex > > OK +68: TEST SUITE tests +68: SEQAN_ENABLE_DEBUG == 1 +68: SEQAN_ENABLE_TESTING == 1 +68: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +68: SEQAN_ASYNC_IO == 1 + 40/415 Test #41: test_test_bed_io .................................................................. Passed 0.41 sec + 41/415 Test #42: test_blast ........................................................................ Passed 0.40 sec + 42/415 Test #43: test_test_consensus ............................................................... Passed 0.40 sec + 43/415 Test #44: test_test_consensus_v2 ............................................................ Passed 0.40 sec + 44/415 Test #46: test_test_gff_io .................................................................. Passed 0.20 sec + 45/415 Test #47: test_test_graph_algorithms ........................................................ Passed 0.16 sec + 46/415 Test #48: test_test_graph_align ............................................................. Passed 0.16 sec + 47/415 Test #50: test_test_graph_types_property_map ................................................ Passed 0.15 sec + 48/415 Test #51: test_test_graph_types_derived ..................................................... Passed 0.15 sec + 49/415 Test #52: test_test_graph_types_iterators ................................................... Passed 0.15 sec + 50/415 Test #53: test_test_graph_types_types ....................................................... Passed 0.14 sec + 51/415 Test #54: test_test_graph_types_utils ....................................................... Passed 0.14 sec + 52/415 Test #55: test_test_index_creation .......................................................... Passed 0.14 sec + 53/415 Test #56: test_test_index_crosscompare_char ................................................. Passed 0.14 sec + 54/415 Test #57: test_test_index_crosscompare_char_dfi ............................................. Passed 0.14 sec + 55/415 Test #59: test_test_index_crosscompare_dna_dfi .............................................. Passed 0.13 sec + 56/415 Test #60: test_test_index_qgram ............................................................. Passed 0.13 sec + 57/415 Test #61: test_test_index_sa_bwtwalk ........................................................ Passed 0.13 sec + 58/415 Test #62: test_test_index_shapes ............................................................ Passed 0.13 sec + 59/415 Test #63: test_test_index_drawing ........................................................... Passed 0.12 sec + 60/415 Test #65: test_test_index_fm_sparse_string .................................................. Passed 0.12 sec test 80 Start 80: test_test_map @@ -302145,35 +302403,55 @@ 94: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_score 94: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score 94: Test timeout computed to be: 10000000 - 53/415 Test #58: test_test_index_crosscompare_dna .................................................. Passed 0.22 sec - 54/415 Test #61: test_test_index_sa_bwtwalk ........................................................ Passed 0.21 sec -20: test_align_parallel_wavefront_multiple_global_alignment OK -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK -18: ************************************** -18: Total Tests: 24 -18: Skipped: 0 -18: Errors: 0 -18: ************************************** - 55/415 Test #18: test_test_align_parallel_interface_avx2_host ...................................... Passed 0.39 sec -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -21: test_align_parallel_wavefront_multiple_global_alignment OK -67: TEST SUITE tests -67: SEQAN_ENABLE_DEBUG == 1 -67: SEQAN_ENABLE_TESTING == 1 -67: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -67: SEQAN_ASYNC_IO == 1 -67: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -67: LFTest_IsSentinel type parameter seqan::Index >, seqan::FMIndex > > OK -68: TEST SUITE tests -68: SEQAN_ENABLE_DEBUG == 1 -68: SEQAN_ENABLE_TESTING == 1 -68: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -68: SEQAN_ASYNC_IO == 1 +test 95 + Start 95: test_test_seeds_combination + +95: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_combination +95: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +95: Test timeout computed to be: 10000000 +test 96 + Start 96: test_test_seeds_extension + +96: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_extension +96: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +96: Test timeout computed to be: 10000000 +test 97 + Start 97: test_test_seeds_global_chaining + +97: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_global_chaining +97: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +97: Test timeout computed to be: 10000000 +test 98 + Start 98: test_test_seeds_seed_base + +98: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_base +98: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +98: Test timeout computed to be: 10000000 +test 99 + Start 99: test_test_seeds_seed_chained + +99: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_chained +99: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +99: Test timeout computed to be: 10000000 +test 100 + Start 100: test_test_seeds_seed_diagonal + +100: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_diagonal +100: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +100: Test timeout computed to be: 10000000 + 61/415 Test #45: test_test_find .................................................................... Passed 0.50 sec +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK 69: TEST SUITE tests 69: SEQAN_ENABLE_DEBUG == 1 69: SEQAN_ENABLE_TESTING == 1 @@ -302445,7 +302723,7 @@ 70: Skipped: 0 70: Errors: 0 70: ************************************** - 56/415 Test #70: test_test_index_stree_iterators ................................................... Passed 0.17 sec + 62/415 Test #70: test_test_index_stree_iterators ................................................... Passed 0.14 sec 71: TEST SUITE test_index_view 71: SEQAN_ENABLE_DEBUG == 1 71: SEQAN_ENABLE_TESTING == 1 @@ -302457,7 +302735,7 @@ 71: Skipped: 0 71: Errors: 0 71: ************************************** - 57/415 Test #71: test_test_index_view .............................................................. Passed 0.17 sec + 63/415 Test #71: test_test_index_view .............................................................. Passed 0.14 sec 72: TEST SUITE tests 72: SEQAN_ENABLE_DEBUG == 1 72: SEQAN_ENABLE_TESTING == 1 @@ -302481,7 +302759,7 @@ 73: Skipped: 0 73: Errors: 0 73: ************************************** - 58/415 Test #73: test_test_find_backtracking ....................................................... Passed 0.15 sec + 64/415 Test #73: test_test_find_backtracking ....................................................... Passed 0.13 sec 74: TEST SUITE test_index_repeats 74: SEQAN_ENABLE_DEBUG == 1 74: SEQAN_ENABLE_TESTING == 1 @@ -302510,7 +302788,7 @@ 75: Skipped: 0 75: Errors: 0 75: ************************************** - 59/415 Test #75: test_test_journaled_set ........................................................... Passed 0.15 sec + 65/415 Test #75: test_test_journaled_set ........................................................... Passed 0.13 sec 76: TEST SUITE test_journaled_string_tree 76: SEQAN_ENABLE_DEBUG == 1 76: SEQAN_ENABLE_TESTING == 1 @@ -302532,157 +302810,7 @@ 76: Skipped: 0 76: Errors: 0 76: ************************************** - 60/415 Test #76: test_test_journaled_string_tree ................................................... Passed 0.14 sec -test 95 - Start 95: test_test_seeds_combination - -95: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_combination -95: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -95: Test timeout computed to be: 10000000 -test 96 - Start 96: test_test_seeds_extension - -96: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_extension -96: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -96: Test timeout computed to be: 10000000 -test 97 - Start 97: test_test_seeds_global_chaining - -97: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_global_chaining -97: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -97: Test timeout computed to be: 10000000 -test 98 - Start 98: test_test_seeds_seed_base - -98: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_base -98: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -98: Test timeout computed to be: 10000000 -test 99 - Start 99: test_test_seeds_seed_chained - -99: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_chained -99: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -99: Test timeout computed to be: 10000000 -test 100 - Start 100: test_test_seeds_seed_diagonal - -100: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_diagonal -100: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -100: Test timeout computed to be: 10000000 -test 101 - Start 101: test_test_seeds_seed_set_base - -101: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_set_base -101: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -101: Test timeout computed to be: 10000000 -test 102 - Start 102: test_test_seeds_seed_set_unordered - -102: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_set_unordered -102: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -102: Test timeout computed to be: 10000000 -49: test_graph_msa_guide_tree_upgma_min OK -49: test_graph_msa_guide_tree_upgma_max OK -49: test_distances OK -49: test_libraries OK -49: test_external_libraries OK -49: test_triplet_extension OK -49: test_sop OK -49: test_progressive OK -49: test_reversable_fragments OK -49: ************************************** -49: Total Tests: 12 -49: Skipped: 0 -49: Errors: 0 -49: ************************************** -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 1u, 0u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 0u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -55: testIndexCreation OK -55: ************************************** -55: Total Tests: 6 -55: Skipped: 0 -55: Errors: 0 -55: ************************************** + 66/415 Test #76: test_test_journaled_string_tree ................................................... Passed 0.12 sec 77: TEST SUITE test_delta_map 77: SEQAN_ENABLE_DEBUG == 1 77: SEQAN_ENABLE_TESTING == 1 @@ -302720,6 +302848,7 @@ 77: Skipped: 0 77: Errors: 0 77: ************************************** + 67/415 Test #77: test_test_delta_map ............................................................... Passed 0.12 sec 78: TEST SUITE test_journaled_string_tree_traverser 78: SEQAN_ENABLE_DEBUG == 1 78: SEQAN_ENABLE_TESTING == 1 @@ -302730,13 +302859,111 @@ 78: test_journaled_string_tree_traverser_init OK 78: test_journaled_string_tree_traverser_context_size OK 78: test_journaled_string_tree_traverser_branch_size OK +test 101 + Start 101: test_test_seeds_seed_set_base + +101: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_set_base +101: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +101: Test timeout computed to be: 10000000 +test 102 + Start 102: test_test_seeds_seed_set_unordered + +102: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_set_unordered +102: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +102: Test timeout computed to be: 10000000 +test 103 + Start 103: test_test_seeds_align_banded_chain_impl + +103: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_align_banded_chain_impl +103: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +103: Test timeout computed to be: 10000000 +test 104 + Start 104: test_test_seeds_banded_chain_alignment_interface + +104: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_banded_chain_alignment_interface +104: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +104: Test timeout computed to be: 10000000 +test 105 + Start 105: test_test_seq_io + +105: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seq_io +105: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io +105: Test timeout computed to be: 10000000 +test 106 + Start 106: test_test_sequence + +106: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_sequence +106: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence +106: Test timeout computed to be: 10000000 +test 107 + Start 107: test_test_sequence_v2 + +107: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_sequence_v2 +107: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence +107: Test timeout computed to be: 10000000 +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 0u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 2u, 2u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 3u, 3u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 1u, 0u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: ************************************** +64: Total Tests: 239 +64: Skipped: 0 +64: Errors: 0 +64: ************************************** 78: test_journaled_string_tree_traverser_at_end OK 78: test_journaled_string_tree_traverser_is_base OK +78: test_journaled_string_tree_traverser_advance OK +78: test_journaled_string_tree_traverser_context_iterator OK +78: test_journaled_string_tree_traverser_container OK +78: test_journaled_string_tree_traverser_basic_traversal OK +78: ************************************** +78: Total Tests: 11 +78: Skipped: 0 +78: Errors: 0 +78: ************************************** 79: TEST SUITE test_journaled_string_tree_find 79: SEQAN_ENABLE_DEBUG == 1 79: SEQAN_ENABLE_TESTING == 1 79: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 79: SEQAN_ASYNC_IO == 1 +49: test_external_libraries OK +49: test_triplet_extension OK +49: test_sop OK +49: test_progressive OK +49: test_reversable_fragments OK +49: ************************************** +49: Total Tests: 12 +49: Skipped: 0 +49: Errors: 0 +49: ************************************** 80: TEST SUITE test_map 80: SEQAN_ENABLE_DEBUG == 1 80: SEQAN_ENABLE_TESTING == 1 @@ -302905,6 +303132,9 @@ 85: SEQAN_ASYNC_IO == 1 85: PARALLELISM ENABLED (CTEST_FULL_OUTPUT) 85: test_parallel_atomic_inc OK +85: test_parallel_atomic_dec OK +85: test_parallel_atomic_add OK +85: test_parallel_atomic_or OK 86: TEST SUITE test_parse_lm 86: SEQAN_ENABLE_DEBUG == 1 86: SEQAN_ENABLE_TESTING == 1 @@ -302970,6 +303200,18 @@ 90: test_realign_one_read_no_gaps OK 90: test_realign_one_read_with_gaps OK 90: test_realign_two_reads_stacked_at_beginning OK +90: test_realign_simple_case OK +90: test_realign_simple_gaps OK +90: test_realign_simple_insert OK +90: test_realign_simple_insert_window OK +90: test_realign_simple_insert_window_tight_left OK +90: test_realign_simple_insert_window_tight_right OK +90: test_realign_tricky_insert_window_cuts OK +90: ************************************** +90: Total Tests: 10 +90: Skipped: 0 +90: Errors: 0 +90: ************************************** 91: TEST SUITE test_reduced_aminoacid 91: SEQAN_ENABLE_DEBUG == 1 91: SEQAN_ENABLE_TESTING == 1 @@ -303037,135 +303279,6 @@ 94: test_score_edit OK 94: test_score_matrix OK 94: test_score_matrix_file OK -94: test_score_matrix_data OK -94: test_score_sequence_entry_for_score OK -94: test_score_dynamic_score_matrix OK -94: ************************************** -94: Total Tests: 8 -94: Skipped: 0 -94: Errors: 0 -94: ************************************** - 61/415 Test #55: test_test_index_creation .......................................................... Passed 0.27 sec - 62/415 Test #77: test_test_delta_map ............................................................... Passed 0.16 sec - 63/415 Test #81: test_test_misc .................................................................... Passed 0.14 sec - 64/415 Test #82: test_test_modifier ................................................................ Passed 0.14 sec - 65/415 Test #83: test_test_modifier_cyclic_shape ................................................... Passed 0.11 sec - 66/415 Test #84: test_test_multiple_translation_units .............................................. Passed 0.11 sec - 67/415 Test #86: test_test_parse_lm ................................................................ Passed 0.10 sec - 68/415 Test #88: test_test_platform ................................................................ Passed 0.09 sec - 69/415 Test #89: test_test_random .................................................................. Passed 0.08 sec - 70/415 Test #92: test_test_rna_io .................................................................. Passed 0.06 sec - 71/415 Test #93: test_test_roi_io .................................................................. Passed 0.06 sec -test 103 - Start 103: test_test_seeds_align_banded_chain_impl - -103: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_align_banded_chain_impl -103: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -103: Test timeout computed to be: 10000000 -test 104 - Start 104: test_test_seeds_banded_chain_alignment_interface - -104: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_banded_chain_alignment_interface -104: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -104: Test timeout computed to be: 10000000 -test 105 - Start 105: test_test_seq_io - -105: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seq_io -105: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io -105: Test timeout computed to be: 10000000 -test 106 - Start 106: test_test_sequence - -106: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_sequence -106: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence -106: Test timeout computed to be: 10000000 -test 107 - Start 107: test_test_sequence_v2 - -107: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_sequence_v2 -107: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence -107: Test timeout computed to be: 10000000 -test 108 - Start 108: test_test_stringset_v2 - -108: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_stringset_v2 -108: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence -108: Test timeout computed to be: 10000000 -test 109 - Start 109: test_test_sequence_journaled - -109: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_sequence_journaled -109: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence_journaled -109: Test timeout computed to be: 10000000 -test 110 - Start 110: test_test_simd_vector - -110: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_simd_vector -110: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd -110: Test timeout computed to be: 10000000 -test 111 - Start 111: test_test_simd_vector_sse4_host - -111: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_simd_vector_sse4 -111: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd -111: Test timeout computed to be: 10000000 -test 112 - Start 112: test_test_simd_vector_avx2_host - -112: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_simd_vector_avx2 -112: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd -112: Test timeout computed to be: 10000000 -test 113 - Start 113: test_test_simple_intervals_io - -113: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_simple_intervals_io -113: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io -113: Test timeout computed to be: 10000000 - 72/415 Test #49: test_test_graph_msa ............................................................... Passed 0.33 sec -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 1u> > > OK - 73/415 Test #91: test_reduced_aminoacid ............................................................ Passed 0.12 sec - 74/415 Test #94: test_test_score ................................................................... Passed 0.10 sec -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK -17: ************************************** -17: Total Tests: 24 -17: Skipped: 0 -17: Errors: 0 -17: ************************************** - 75/415 Test #17: test_test_align_parallel_interface_sse4_host ...................................... Passed 0.48 sec -74: test_index_repeats_period_1_many_ns OK -74: ************************************** -74: Total Tests: 3 -74: Skipped: 0 -74: Errors: 0 -74: ************************************** - 76/415 Test #74: test_test_index_repeats ........................................................... Passed 0.24 sec -44: test_consensus_consensus_alignment_no_contig_ids OK -44: test_consensus_consensus_alignment_global_alignment OK -44: ************************************** -44: Total Tests: 4 -44: Skipped: 0 -44: Errors: 0 -44: ************************************** 95: TEST SUITE test_seeds_combination 95: SEQAN_ENABLE_DEBUG == 1 95: SEQAN_ENABLE_TESTING == 1 @@ -303182,7 +303295,6 @@ 95: Skipped: 0 95: Errors: 0 95: ************************************** - 77/415 Test #95: test_test_seeds_combination ....................................................... Passed 0.09 sec 96: TEST SUITE test_seeds_extension 96: SEQAN_ENABLE_DEBUG == 1 96: SEQAN_ENABLE_TESTING == 1 @@ -303198,7 +303310,6 @@ 96: Skipped: 0 96: Errors: 0 96: ************************************** - 78/415 Test #96: test_test_seeds_extension ......................................................... Passed 0.08 sec 97: TEST SUITE test_seeds_global_chaining 97: SEQAN_ENABLE_DEBUG == 1 97: SEQAN_ENABLE_TESTING == 1 @@ -303210,7 +303321,6 @@ 97: Skipped: 0 97: Errors: 0 97: ************************************** - 79/415 Test #97: test_test_seeds_global_chaining ................................................... Passed 0.08 sec 98: TEST SUITE test_seeds_seed_base 98: SEQAN_ENABLE_DEBUG == 1 98: SEQAN_ENABLE_TESTING == 1 @@ -303231,7 +303341,6 @@ 98: Skipped: 0 98: Errors: 0 98: ************************************** - 80/415 Test #98: test_test_seeds_seed_base ......................................................... Passed 0.08 sec 99: TEST SUITE test_seeds_seed_chained 99: SEQAN_ENABLE_DEBUG == 1 99: SEQAN_ENABLE_TESTING == 1 @@ -303248,7 +303357,6 @@ 99: Skipped: 0 99: Errors: 0 99: ************************************** - 81/415 Test #99: test_test_seeds_seed_chained ...................................................... Passed 0.07 sec 100: TEST SUITE test_seeds_seed_diagonal 100: SEQAN_ENABLE_DEBUG == 1 100: SEQAN_ENABLE_TESTING == 1 @@ -303261,7 +303369,126 @@ 100: Skipped: 0 100: Errors: 0 100: ************************************** - 82/415 Test #100: test_test_seeds_seed_diagonal ..................................................... Passed 0.07 sec + 68/415 Test #81: test_test_misc .................................................................... Passed 0.40 sec + 69/415 Test #82: test_test_modifier ................................................................ Passed 0.42 sec + 70/415 Test #83: test_test_modifier_cyclic_shape ................................................... Passed 0.42 sec + 71/415 Test #84: test_test_multiple_translation_units .............................................. Passed 0.41 sec + 72/415 Test #86: test_test_parse_lm ................................................................ Passed 0.40 sec + 73/415 Test #88: test_test_platform ................................................................ Passed 0.39 sec + 74/415 Test #89: test_test_random .................................................................. Passed 0.39 sec + 75/415 Test #91: test_reduced_aminoacid ............................................................ Passed 0.38 sec + 76/415 Test #95: test_test_seeds_combination ....................................................... Passed 0.36 sec + 77/415 Test #96: test_test_seeds_extension ......................................................... Passed 0.36 sec + 78/415 Test #97: test_test_seeds_global_chaining ................................................... Passed 0.35 sec + 79/415 Test #98: test_test_seeds_seed_base ......................................................... Passed 0.35 sec + 80/415 Test #99: test_test_seeds_seed_chained ...................................................... Passed 0.34 sec + 81/415 Test #100: test_test_seeds_seed_diagonal ..................................................... Passed 0.34 sec +test 108 + Start 108: test_test_stringset_v2 + +108: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_stringset_v2 +108: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence +108: Test timeout computed to be: 10000000 +test 109 + Start 109: test_test_sequence_journaled + +109: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_sequence_journaled +109: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence_journaled +109: Test timeout computed to be: 10000000 +test 110 + Start 110: test_test_simd_vector + +110: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_simd_vector +110: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd +110: Test timeout computed to be: 10000000 +test 111 + Start 111: test_test_simd_vector_sse4_host + +111: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_simd_vector_sse4 +111: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd +111: Test timeout computed to be: 10000000 +test 112 + Start 112: test_test_simd_vector_avx2_host + +112: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_simd_vector_avx2 +112: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd +112: Test timeout computed to be: 10000000 +test 113 + Start 113: test_test_simple_intervals_io + +113: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_simple_intervals_io +113: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io +113: Test timeout computed to be: 10000000 +test 114 + Start 114: test_test_statistics + +114: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_statistics +114: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics +114: Test timeout computed to be: 10000000 +test 115 + Start 115: test_test_store + +115: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_store +115: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store +115: Test timeout computed to be: 10000000 +test 116 + Start 116: test_test_stream + +116: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_stream +116: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream +116: Test timeout computed to be: 10000000 +test 117 + Start 117: test_test_find_swift + +117: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_find_swift +117: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local +117: Test timeout computed to be: 10000000 +test 118 + Start 118: test_test_tabix_io + +118: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_tabix_io +118: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io +118: Test timeout computed to be: 10000000 +test 119 + Start 119: test_translation + +119: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_translation +119: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation +119: Test timeout computed to be: 10000000 +test 120 + Start 120: test_ucsc_io + +120: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_ucsc_io +120: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io +120: Test timeout computed to be: 10000000 +test 121 + Start 121: test_test_vcf_io + +121: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_vcf_io +121: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io +121: Test timeout computed to be: 10000000 + 82/415 Test #64: test_test_index_fm_rank_dictionary ................................................ Passed 0.62 sec + 83/415 Test #78: test_journaled_string_tree_traverser .............................................. Passed 0.51 sec + 84/415 Test #49: test_test_graph_msa ............................................................... Passed 0.65 sec +85: test_parallel_atomic_xor OK + 85/415 Test #90: test_test_realign ................................................................. Passed 0.45 sec + 86/415 Test #92: test_test_rna_io .................................................................. Passed 0.44 sec + 87/415 Test #93: test_test_roi_io .................................................................. Passed 0.44 sec +74: test_index_repeats_period_1_many_ns OK +74: ************************************** +74: Total Tests: 3 +74: Skipped: 0 +74: Errors: 0 +74: ************************************** + 88/415 Test #74: test_test_index_repeats ........................................................... Passed 0.52 sec +68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK +68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +67: LFTest_IsSentinel type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +67: LFTest_IsSentinel type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +66: IndexTest_IndexCreate type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +69: TopDownIndexIteratorTest_Constructor type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +72: IndexFinderTest_FindFirstChar type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK 101: TEST SUITE test_seeds_seed_set_base 101: SEQAN_ENABLE_DEBUG == 1 101: SEQAN_ENABLE_TESTING == 1 @@ -303326,124 +303553,19 @@ 101: Skipped: 0 101: Errors: 0 101: ************************************** - 83/415 Test #101: test_test_seeds_seed_set_base ..................................................... Passed 0.07 sec + 89/415 Test #101: test_test_seeds_seed_set_base ..................................................... Passed 0.39 sec 102: TEST SUITE test_seeds_seed_set 102: SEQAN_ENABLE_DEBUG == 1 102: SEQAN_ENABLE_TESTING == 1 -102: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -102: SEQAN_ASYNC_IO == 1 -102: test_seeds_seed_set_container_functions_unordered OK -102: ************************************** -102: Total Tests: 1 -102: Skipped: 0 -102: Errors: 0 -102: ************************************** - 84/415 Test #102: test_test_seeds_seed_set_unordered ................................................ Passed 0.07 sec -test 114 - Start 114: test_test_statistics - -114: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_statistics -114: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics -114: Test timeout computed to be: 10000000 -test 115 - Start 115: test_test_store - -115: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_store -115: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store -115: Test timeout computed to be: 10000000 -test 116 - Start 116: test_test_stream - -116: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_stream -116: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream -116: Test timeout computed to be: 10000000 -test 117 - Start 117: test_test_find_swift - -117: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_find_swift -117: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local -117: Test timeout computed to be: 10000000 -test 118 - Start 118: test_test_tabix_io - -118: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_tabix_io -118: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io -118: Test timeout computed to be: 10000000 -test 119 - Start 119: test_translation - -119: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_translation -119: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation -119: Test timeout computed to be: 10000000 -test 120 - Start 120: test_ucsc_io - -120: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_ucsc_io -120: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io -120: Test timeout computed to be: 10000000 -test 121 - Start 121: test_test_vcf_io - -121: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_vcf_io -121: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io -121: Test timeout computed to be: 10000000 -test 122 - Start 122: test_demo_dox_align_align - -122: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_align" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/align.cpp.stdout" -122: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -122: Test timeout computed to be: 10000000 -test 123 - Start 123: test_demo_dox_align_compute_alignment_stats - -123: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_compute_alignment_stats" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/compute_alignment_stats.cpp.stdout" -123: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -123: Test timeout computed to be: 10000000 -test 124 - Start 124: test_demo_dox_align_gaps_example - -124: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_gaps_example" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/gaps_example.cpp.stdout" -124: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -124: Test timeout computed to be: 10000000 -test 125 - Start 125: test_demo_dox_align_global_alignment_banded - -125: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_global_alignment_banded" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_banded.cpp.stdout" -125: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -125: Test timeout computed to be: 10000000 -test 126 - Start 126: test_demo_dox_align_global_alignment_unbanded - -126: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_global_alignment_unbanded" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_unbanded.cpp.stdout" -126: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -126: Test timeout computed to be: 10000000 -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK - 85/415 Test #44: test_test_consensus_v2 ............................................................ Passed 0.41 sec -78: test_journaled_string_tree_traverser_advance OK -78: test_journaled_string_tree_traverser_context_iterator OK -78: test_journaled_string_tree_traverser_container OK -78: test_journaled_string_tree_traverser_basic_traversal OK -78: ************************************** -78: Total Tests: 11 -78: Skipped: 0 -78: Errors: 0 -78: ************************************** - 86/415 Test #78: test_journaled_string_tree_traverser .............................................. Passed 0.27 sec -90: test_realign_simple_case OK -90: test_realign_simple_gaps OK +102: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +102: SEQAN_ASYNC_IO == 1 +102: test_seeds_seed_set_container_functions_unordered OK +102: ************************************** +102: Total Tests: 1 +102: Skipped: 0 +102: Errors: 0 +102: ************************************** + 90/415 Test #102: test_test_seeds_seed_set_unordered ................................................ Passed 0.39 sec 103: TEST SUITE test_banded_chain_impl 103: SEQAN_ENABLE_DEBUG == 1 103: SEQAN_ENABLE_TESTING == 1 @@ -303468,7 +303590,6 @@ 103: Skipped: 0 103: Errors: 0 103: ************************************** - 87/415 Test #103: test_test_seeds_align_banded_chain_impl ........................................... Passed 0.11 sec 104: TEST SUITE test_banded_chain_alignment_interface 104: SEQAN_ENABLE_DEBUG == 1 104: SEQAN_ENABLE_TESTING == 1 @@ -303528,7 +303649,7 @@ 104: Skipped: 0 104: Errors: 0 104: ************************************** - 88/415 Test #104: test_test_seeds_banded_chain_alignment_interface .................................. Passed 0.11 sec + 91/415 Test #104: test_test_seeds_banded_chain_alignment_interface .................................. Passed 0.11 sec 105: TEST SUITE test_seq_io 105: SEQAN_ENABLE_DEBUG == 1 105: SEQAN_ENABLE_TESTING == 1 @@ -303565,17 +303686,6 @@ 105: test_stream_read_embl_single_char_array_stream OK 105: test_stream_read_embl_record_char_array_stream OK 105: test_stream_read_embl_single_mmap OK -105: test_stream_read_embl_single_batch_mmap OK -105: test_stream_read_genbank_single_char_array_stream OK -105: test_stream_read_genbank_record_char_array_stream OK -105: test_stream_read_genbank_single_mmap OK -105: test_stream_read_genbank_single_batch_mmap OK -105: test_seq_io_bam_file_sam_read_sequences OK -105: test_seq_io_bam_file_sam_read_sequences_and_qualities OK -105: test_seq_io_bam_file_sam_write_sequences OK -105: test_seq_io_bam_file_sam_write_sequences_and_qualities OK -105: test_seq_io_bam_file_bam_read_sequences OK -105: test_seq_io_bam_file_bam_read_sequences_and_qualities OK 106: TEST SUITE Sequence tests 106: SEQAN_ENABLE_DEBUG == 1 106: SEQAN_ENABLE_TESTING == 1 @@ -303618,29 +303728,22 @@ 106: Suffix OK 106: ticket317 OK 106: ticket848 OK -106: DEFAULT CONSTRUCTING TestContainer 0x7ffd39a5afc0 -106: string.data_begin 0x5608a4fffd70 -106: COPY CONSTRUCTING TestContainer 0x7ffd39a5afe0 -106: other 0x7ffd39a5afc0 -106: string.data_begin 0x5608a5000a20 -106: COPY CONSTRUCTING TestContainer 0x5608a50002f0 -106: other 0x7ffd39a5afe0 -106: string.data_begin 0x5608a5000ab0 -106: DECONSTRUCTING TestContainer 0x7ffd39a5afe0 -106: string.data_begin 0x5608a5000a20 -106: DECONSTRUCTING TestContainer 0x7ffd39a5afc0 -106: string.data_begin 0x5608a4fffd70 -106: DECONSTRUCTING TestContainer 0x5608a50002f0 -106: string.data_begin 0x5608a5000ab0 +106: DEFAULT CONSTRUCTING TestContainer 0x7ffe7250ae60 +106: string.data_begin 0x5643f86fad70 +106: COPY CONSTRUCTING TestContainer 0x7ffe7250ae80 +106: other 0x7ffe7250ae60 +106: string.data_begin 0x5643f86fba20 +106: COPY CONSTRUCTING TestContainer 0x5643f86fb2f0 +106: other 0x7ffe7250ae80 +106: string.data_begin 0x5643f86fbab0 +106: DECONSTRUCTING TestContainer 0x7ffe7250ae80 +106: string.data_begin 0x5643f86fba20 +106: DECONSTRUCTING TestContainer 0x7ffe7250ae60 +106: string.data_begin 0x5643f86fad70 +106: DECONSTRUCTING TestContainer 0x5643f86fb2f0 +106: string.data_begin 0x5643f86fbab0 106: test_find_motif_memory_leak_ticket_364 OK 106: ticket901 OK -106: ticket1108 OK -106: String_Packed_Extension OK -106: ************************************** -106: Total Tests: 41 -106: Skipped: 0 -106: Errors: 0 -106: ************************************** 107: TEST SUITE tests 107: SEQAN_ENABLE_DEBUG == 1 107: SEQAN_ENABLE_TESTING == 1 @@ -303693,135 +303796,76 @@ 107: StringTestCommon_CopyConstructible type parameter seqan::String >, 4194304u, 2u> > > OK 107: StringTestCommon_CopyConstructible type parameter seqan::String >, 4194304u, 2u> > > OK 107: StringTestCommon_CopyConstructible type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String > > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String > > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String > > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String > OK -107: StringTestCommon_CopyConstructible type parameter seqan::String > OK -107: StringTestCommon_CopyConstructible type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_CopyConstructible type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_CopyConstructible type parameter std::vector, std::allocator > > OK -107: StringTestCommon_CopyConstructible type parameter std::vector > OK -107: StringTestCommon_CopyConstructible type parameter std::vector > OK -107: StringTestCommon_CopyConstructible type parameter std::vector > OK -107: StringTestCommon_CopyConstructible type parameter std::deque, std::allocator > > OK -107: StringTestCommon_CopyConstructible type parameter std::deque > OK -107: StringTestCommon_CopyConstructible type parameter std::deque > OK -107: StringTestCommon_CopyConstructible type parameter std::deque > OK -107: StringTestCommon_CopyConstructible type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_CopyConstructible type parameter std::forward_list > OK -107: StringTestCommon_CopyConstructible type parameter std::forward_list > OK -107: StringTestCommon_CopyConstructible type parameter std::forward_list > OK -107: StringTestCommon_CopyConstructible type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_CopyConstructible type parameter std::__cxx11::list > OK -107: StringTestCommon_CopyConstructible type parameter std::__cxx11::list > OK -107: StringTestCommon_CopyConstructible type parameter std::__cxx11::list > OK -107: StringTestCommon_LessOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_LessOperator type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_LessOperator type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_LessOperator type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_LessOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_LessOperator type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_LessOperator type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_LessOperator type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_LessOperator type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_LessOperator type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_LessOperator type parameter seqan::String > > OK -107: StringTestCommon_LessOperator type parameter seqan::String > > OK -107: StringTestCommon_LessOperator type parameter seqan::String > > OK -107: StringTestCommon_LessOperator type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_LessOperator type parameter seqan::String > OK -107: StringTestCommon_LessOperator type parameter seqan::String > OK -107: StringTestCommon_LessOperator type parameter seqan::String > OK -107: StringTestCommon_LessOperator type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_LessOperator type parameter seqan::String > OK -107: StringTestCommon_LessOperator type parameter seqan::String > OK -107: StringTestCommon_LessOperator type parameter seqan::String > OK -107: StringTestCommon_LessOperator type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_LessOperator type parameter seqan::String > OK -107: StringTestCommon_LessOperator type parameter seqan::String > OK -107: StringTestCommon_LessOperator type parameter seqan::String > OK -107: StringTestCommon_LessOperator type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_LessOperator type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_LessOperator type parameter std::vector, std::allocator > > OK -107: StringTestCommon_LessOperator type parameter std::vector > OK -107: StringTestCommon_LessOperator type parameter std::vector > OK -107: StringTestCommon_LessOperator type parameter std::vector > OK -107: StringTestCommon_LessOperator type parameter std::deque, std::allocator > > OK -107: StringTestCommon_LessOperator type parameter std::deque > OK -107: StringTestCommon_LessOperator type parameter std::deque > OK -107: StringTestCommon_LessOperator type parameter std::deque > OK -107: StringTestCommon_LessOperator type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_LessOperator type parameter std::forward_list > OK -107: StringTestCommon_LessOperator type parameter std::forward_list > OK -107: StringTestCommon_LessOperator type parameter std::forward_list > OK -107: StringTestCommon_LessOperator type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_LessOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_LessOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_LessOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String > > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String > > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String > > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -107: StringTestCommon_LessEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_LessEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_LessEqualOperator type parameter std::vector, std::allocator > > OK -107: StringTestCommon_LessEqualOperator type parameter std::vector > OK -107: StringTestCommon_LessEqualOperator type parameter std::vector > OK -107: StringTestCommon_LessEqualOperator type parameter std::vector > OK -107: StringTestCommon_LessEqualOperator type parameter std::deque, std::allocator > > OK -107: StringTestCommon_LessEqualOperator type parameter std::deque > OK -107: StringTestCommon_LessEqualOperator type parameter std::deque > OK -107: StringTestCommon_LessEqualOperator type parameter std::deque > OK -107: StringTestCommon_LessEqualOperator type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_LessEqualOperator type parameter std::forward_list > OK -107: StringTestCommon_LessEqualOperator type parameter std::forward_list > OK -107: StringTestCommon_LessEqualOperator type parameter std::forward_list > OK -107: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String >, 4194304u, 2u> > > OK +test 122 + Start 122: test_demo_dox_align_align + +122: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_align" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/align.cpp.stdout" +122: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +122: Test timeout computed to be: 10000000 +test 123 + Start 123: test_demo_dox_align_compute_alignment_stats + +123: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_compute_alignment_stats" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/compute_alignment_stats.cpp.stdout" +123: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +123: Test timeout computed to be: 10000000 +test 124 + Start 124: test_demo_dox_align_gaps_example + +124: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_gaps_example" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/gaps_example.cpp.stdout" +124: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +124: Test timeout computed to be: 10000000 +test 125 + Start 125: test_demo_dox_align_global_alignment_banded + +125: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_global_alignment_banded" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_banded.cpp.stdout" +125: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +125: Test timeout computed to be: 10000000 +test 126 + Start 126: test_demo_dox_align_global_alignment_unbanded + +126: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_global_alignment_unbanded" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_unbanded.cpp.stdout" +126: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +126: Test timeout computed to be: 10000000 +test 127 + Start 127: test_demo_dox_align_integrate_align + +127: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_integrate_align" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/integrate_align.cpp.stdout" +127: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +127: Test timeout computed to be: 10000000 +test 128 + Start 128: test_demo_dox_align_extend_extend_alignment + +128: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_extend_extend_alignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_extend/extend_alignment.cpp.stdout" +128: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +128: Test timeout computed to be: 10000000 +test 129 + Start 129: test_demo_dox_align_split_split_alignment + +129: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_split_split_alignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_split/split_alignment.cpp.stdout" +129: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +129: Test timeout computed to be: 10000000 +test 130 + Start 130: test_demo_dox_bam_io_bam_tags_dict + +130: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_bam_io_bam_tags_dict" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bam_io/bam_tags_dict.cpp.stdout" +130: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +130: Test timeout computed to be: 10000000 +test 131 + Start 131: test_demo_dox_basic_zip_iterator + +131: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_basic_zip_iterator" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/zip_iterator.cpp.stdout" +131: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +131: Test timeout computed to be: 10000000 + 92/415 Test #103: test_test_seeds_align_banded_chain_impl ........................................... Passed 0.43 sec +94: test_score_matrix_data OK +94: test_score_sequence_entry_for_score OK +94: test_score_dynamic_score_matrix OK +94: ************************************** +94: Total Tests: 8 +94: Skipped: 0 +94: Errors: 0 +94: ************************************** + 93/415 Test #94: test_test_score ................................................................... Passed 0.48 sec 108: TEST SUITE tests 108: SEQAN_ENABLE_DEBUG == 1 108: SEQAN_ENABLE_TESTING == 1 @@ -304245,7 +304289,7 @@ 109: Skipped: 0 109: Errors: 0 109: ************************************** - 89/415 Test #109: test_test_sequence_journaled ...................................................... Passed 0.11 sec + 94/415 Test #109: test_test_sequence_journaled ...................................................... Passed 0.11 sec 110: TEST SUITE test_simd_vector 110: SEQAN_ENABLE_DEBUG == 1 110: SEQAN_ENABLE_TESTING == 1 @@ -304256,7 +304300,7 @@ 110: Skipped: 0 110: Errors: 0 110: ************************************** - 90/415 Test #110: test_test_simd_vector ............................................................. Passed 0.10 sec + 95/415 Test #110: test_test_simd_vector ............................................................. Passed 0.10 sec 111: TEST SUITE test_simd_vector 111: SEQAN_ENABLE_DEBUG == 1 111: SEQAN_ENABLE_TESTING == 1 @@ -304566,7 +304610,7 @@ 111: Skipped: 0 111: Errors: 0 111: ************************************** - 91/415 Test #111: test_test_simd_vector_sse4_host ................................................... Passed 0.10 sec + 96/415 Test #111: test_test_simd_vector_sse4_host ................................................... Passed 0.10 sec 112: TEST SUITE test_simd_vector 112: SEQAN_ENABLE_DEBUG == 1 112: SEQAN_ENABLE_TESTING == 1 @@ -305173,7 +305217,7 @@ 112: Skipped: 0 112: Errors: 0 112: ************************************** - 92/415 Test #112: test_test_simd_vector_avx2_host ................................................... Passed 0.11 sec + 97/415 Test #112: test_test_simd_vector_avx2_host ................................................... Passed 0.10 sec 113: TEST SUITE test_simple_intervals_io 113: SEQAN_ENABLE_DEBUG == 1 113: SEQAN_ENABLE_TESTING == 1 @@ -305188,474 +305232,7 @@ 113: Skipped: 0 113: Errors: 0 113: ************************************** - 93/415 Test #113: test_test_simple_intervals_io ..................................................... Passed 0.11 sec -test 127 - Start 127: test_demo_dox_align_integrate_align - -127: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_integrate_align" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/integrate_align.cpp.stdout" -127: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -127: Test timeout computed to be: 10000000 -test 128 - Start 128: test_demo_dox_align_extend_extend_alignment - -128: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_extend_extend_alignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_extend/extend_alignment.cpp.stdout" -128: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -128: Test timeout computed to be: 10000000 -test 129 - Start 129: test_demo_dox_align_split_split_alignment - -129: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_split_split_alignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_split/split_alignment.cpp.stdout" -129: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -129: Test timeout computed to be: 10000000 -test 130 - Start 130: test_demo_dox_bam_io_bam_tags_dict - -130: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_bam_io_bam_tags_dict" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bam_io/bam_tags_dict.cpp.stdout" -130: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -130: Test timeout computed to be: 10000000 -test 131 - Start 131: test_demo_dox_basic_zip_iterator - -131: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_basic_zip_iterator" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/zip_iterator.cpp.stdout" -131: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -131: Test timeout computed to be: 10000000 -test 132 - Start 132: test_demo_dox_consensus_consensus_alignment - -132: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_consensus_consensus_alignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/consensus/consensus_alignment.cpp.stdout" -132: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -132: Test timeout computed to be: 10000000 -test 133 - Start 133: test_demo_dox_find_finder_index - -133: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_index" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_index.cpp.stdout" -133: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -133: Test timeout computed to be: 10000000 -test 134 - Start 134: test_demo_dox_find_finder_online - -134: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_online" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_online.cpp.stdout" -134: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -134: Test timeout computed to be: 10000000 -test 135 - Start 135: test_demo_dox_graph_algorithms_all_pairs_shortest_path - -135: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_all_pairs_shortest_path" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/all_pairs_shortest_path.cpp.stdout" -135: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -135: Test timeout computed to be: 10000000 -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 0u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 1u, 1u> > > OK -90: test_realign_simple_insert OK -90: test_realign_simple_insert_window OK -90: test_realign_simple_insert_window_tight_left OK -90: test_realign_simple_insert_window_tight_right OK -90: test_realign_tricky_insert_window_cuts OK -90: ************************************** -90: Total Tests: 10 -90: Skipped: 0 -90: Errors: 0 -90: ************************************** -105: test_seq_io_bam_file_bam_write_sequences OK -105: test_seq_io_bam_file_bam_write_sequences_and_qualities OK -105: ************************************** -105: Total Tests: 44 -105: Skipped: 0 -105: Errors: 0 -105: ************************************** -107: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String > > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String > > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String > > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterOperator type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_GreaterOperator type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_GreaterOperator type parameter std::vector, std::allocator > > OK -107: StringTestCommon_GreaterOperator type parameter std::vector > OK -107: StringTestCommon_GreaterOperator type parameter std::vector > OK -107: StringTestCommon_GreaterOperator type parameter std::vector > OK -107: StringTestCommon_GreaterOperator type parameter std::deque, std::allocator > > OK -107: StringTestCommon_GreaterOperator type parameter std::deque > OK -107: StringTestCommon_GreaterOperator type parameter std::deque > OK -107: StringTestCommon_GreaterOperator type parameter std::deque > OK -107: StringTestCommon_GreaterOperator type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_GreaterOperator type parameter std::forward_list > OK -107: StringTestCommon_GreaterOperator type parameter std::forward_list > OK -107: StringTestCommon_GreaterOperator type parameter std::forward_list > OK -107: StringTestCommon_GreaterOperator type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_GreaterOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_GreaterOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_GreaterOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::vector, std::allocator > > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::vector > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::vector > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::vector > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::deque, std::allocator > > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::deque > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::deque > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::deque > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::forward_list > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::forward_list > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::forward_list > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_EqualOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_EqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_EqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_EqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_EqualOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_EqualOperator type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_EqualOperator type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_EqualOperator type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_EqualOperator type parameter seqan::String > > OK -107: StringTestCommon_EqualOperator type parameter seqan::String > > OK -107: StringTestCommon_EqualOperator type parameter seqan::String > > OK -107: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_EqualOperator type parameter seqan::String > OK -107: StringTestCommon_EqualOperator type parameter seqan::String > OK -107: StringTestCommon_EqualOperator type parameter seqan::String > OK -107: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_EqualOperator type parameter seqan::String > OK -107: StringTestCommon_EqualOperator type parameter seqan::String > OK -107: StringTestCommon_EqualOperator type parameter seqan::String > OK -107: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_EqualOperator type parameter seqan::String > OK -107: StringTestCommon_EqualOperator type parameter seqan::String > OK -107: StringTestCommon_EqualOperator type parameter seqan::String > OK -107: StringTestCommon_EqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_EqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_EqualOperator type parameter std::vector, std::allocator > > OK -107: StringTestCommon_EqualOperator type parameter std::vector > OK -107: StringTestCommon_EqualOperator type parameter std::vector > OK -107: StringTestCommon_EqualOperator type parameter std::vector > OK -107: StringTestCommon_EqualOperator type parameter std::deque, std::allocator > > OK -107: StringTestCommon_EqualOperator type parameter std::deque > OK -107: StringTestCommon_EqualOperator type parameter std::deque > OK -107: StringTestCommon_EqualOperator type parameter std::deque > OK -107: StringTestCommon_EqualOperator type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_EqualOperator type parameter std::forward_list > OK -107: StringTestCommon_EqualOperator type parameter std::forward_list > OK -107: StringTestCommon_EqualOperator type parameter std::forward_list > OK -107: StringTestCommon_EqualOperator type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_EqualOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_EqualOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_EqualOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String >, unsigned long> > > OK -108: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Insert type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK -108: ************************************** -108: Total Tests: 576 -108: Skipped: 18 -108: Errors: 0 -108: ************************************** -85: test_parallel_atomic_dec OK -85: test_parallel_atomic_add OK -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK -45: test_myers_find_banded OK -45: test_myers_find_banded_csp OK -45: test_myers_find_infix_find_begin_at_start OK -45: test_myers_find_infix_find_begin_within OK -45: test_find_on_segments OK -45: test_find_hamming_simple OK -45: test_find_hamming_simple_regression_rmbench OK -45: test_regression_rmbench OK -45: test_find_online_Simple OK -45: test_find_online_Horspool OK -45: test_find_online_ShiftAnd OK -45: test_find_online_ShiftOr OK -45: test_find_online_BndmAlgo OK -45: test_find_online_BFAM_Oracle OK -45: test_find_online_BFAM_Trie OK -45: test_find_online_wildcards OK -45: test_find_online_multi_AhoCorasick OK -45: test_find_online_multi_MultipleShiftAnd OK -45: test_find_online_multi_SetHorspool OK -45: test_find_online_multi_WuManber OK -45: test_find_online_multi_MultiBFAM_Oracle OK -45: test_find_online_multi_MultiBFAM_Trie OK -45: test_find_approx_prefix_edit_dist_dpsearch OK -45: test_approx_prefix_edit_dist_myers OK -45: test_approx_edit_dist_dp_search_simple_score OK -45: test_approx_edit_dist_myers OK -45: test_approx_edit_dp_search_simple_score_legacy_case OK -45: test_approx_edit_dist_abndm_algo OK -45: test_approx_edit_dist_pex_non_hierarchical OK -45: test_approx_edit_dist_pex_hierarchical OK -45: test_approx_edit_dist_pex_non_hierarchical_aho_corasick OK -45: test_approx_edit_dist_pex_non_hierarchical_multi_bfam OK -45: test_find_hamming_simple OK -45: test_pattern_copycon OK -45: test_pattern_assign OK -45: test_pattern_movecon OK -45: test_pattern_moveassign OK -45: test_pattern_set_host OK -45: ************************************** -45: Total Tests: 39 -45: Skipped: 0 -45: Errors: 0 -45: ************************************** + 98/415 Test #113: test_test_simple_intervals_io ..................................................... Passed 0.10 sec 114: TEST SUITE test_statistics 114: SEQAN_ENABLE_DEBUG == 1 114: SEQAN_ENABLE_TESTING == 1 @@ -305668,6 +305245,7 @@ 114: Skipped: 0 114: Errors: 0 114: ************************************** + 99/415 Test #114: test_test_statistics .............................................................. Passed 0.10 sec 115: TEST SUITE test_store 115: SEQAN_ENABLE_DEBUG == 1 115: SEQAN_ENABLE_TESTING == 1 @@ -305873,6 +305451,7 @@ 117: Skipped: 0 117: Errors: 0 117: ************************************** +100/415 Test #117: test_test_find_swift .............................................................. Passed 0.08 sec 118: TEST SUITE test_tabix_io 118: SEQAN_ENABLE_DEBUG == 1 118: SEQAN_ENABLE_TESTING == 1 @@ -305895,7 +305474,6 @@ 119: test_translation_onestring_multiframe_concatdirect_serial OK 119: test_translation_stringset_multiframe_serial OK 119: test_translation_stringset_multiframe_concatdirect_serial OK -119: test_translation_onestring_multiframe_parallel OK 120: TEST SUITE test_ucsc_io 120: SEQAN_ENABLE_DEBUG == 1 120: SEQAN_ENABLE_TESTING == 1 @@ -305914,6 +305492,7 @@ 120: Skipped: 0 120: Errors: 0 120: ************************************** +101/415 Test #120: test_ucsc_io ...................................................................... Passed 0.07 sec 121: TEST SUITE test_vcf_io 121: SEQAN_ENABLE_DEBUG == 1 121: SEQAN_ENABLE_TESTING == 1 @@ -305932,13 +305511,30 @@ 121: Skipped: 0 121: Errors: 0 121: ************************************** - 94/415 Test #45: test_test_find .................................................................... Passed 0.50 sec - 95/415 Test #106: test_test_sequence ................................................................ Passed 0.19 sec - 96/415 Test #108: test_test_stringset_v2 ............................................................ Passed 0.18 sec - 97/415 Test #114: test_test_statistics .............................................................. Passed 0.15 sec - 98/415 Test #117: test_test_find_swift .............................................................. Passed 0.13 sec - 99/415 Test #120: test_ucsc_io ...................................................................... Passed 0.12 sec -100/415 Test #121: test_test_vcf_io .................................................................. Passed 0.12 sec +test 132 + Start 132: test_demo_dox_consensus_consensus_alignment + +132: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_consensus_consensus_alignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/consensus/consensus_alignment.cpp.stdout" +132: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +132: Test timeout computed to be: 10000000 +test 133 + Start 133: test_demo_dox_find_finder_index + +133: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_index" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_index.cpp.stdout" +133: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +133: Test timeout computed to be: 10000000 +test 134 + Start 134: test_demo_dox_find_finder_online + +134: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_online" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_online.cpp.stdout" +134: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +134: Test timeout computed to be: 10000000 +test 135 + Start 135: test_demo_dox_graph_algorithms_all_pairs_shortest_path + +135: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_all_pairs_shortest_path" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/all_pairs_shortest_path.cpp.stdout" +135: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +135: Test timeout computed to be: 10000000 test 136 Start 136: test_demo_dox_graph_algorithms_bellman_ford_algorithm @@ -305975,292 +305571,260 @@ 141: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_floyd_warshall_algorithm" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/floyd_warshall_algorithm.cpp.stdout" 141: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 141: Test timeout computed to be: 10000000 +108: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Insert type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_InsertValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Iter type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Length type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Resize type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Value type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Infix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Prefix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_Suffix type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_InfixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_PrefixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Packed > >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet > >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Array<100ul> >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Array<1000ul> >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: StringSetTestCommon_SuffixOnValue type parameter seqan::StringSet >, seqan::Owner > > OK +108: ************************************** +108: Total Tests: 576 +108: Skipped: 18 +108: Errors: 0 +108: ************************************** +85: test_parallel_atomic_cas OK +66: IndexTest_IndexCreate type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +66: IndexTest_Length type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +66: IndexTest_Length type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +66: IndexTest_Length type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +66: IndexTest_Length type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +66: IndexTest_Length type parameter seqan::Index >, seqan::FMIndex > > OK +66: IndexTest_Length type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +66: IndexTest_Length type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +66: IndexTest_ClearEmpty type parameter seqan::Index >, seqan::FMIndex > > OK +102/415 Test #108: test_test_stringset_v2 ............................................................ Passed 0.17 sec +103/415 Test #118: test_test_tabix_io ................................................................ Passed 0.30 sec +104/415 Test #121: test_test_vcf_io .................................................................. Passed 0.28 sec test 142 Start 142: test_demo_dox_graph_algorithms_ford_fulkerson_algorithm 142: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_ford_fulkerson_algorithm" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.stdout" 142: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 142: Test timeout computed to be: 10000000 -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -101/415 Test #90: test_test_realign ................................................................. Passed 0.32 sec -102/415 Test #105: test_test_seq_io .................................................................. Passed 0.23 sec -107: StringTestCommon_UnequalOperator type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String > > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String > > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String > > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String > OK -107: StringTestCommon_UnequalOperator type parameter seqan::String > OK -107: StringTestCommon_UnequalOperator type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_UnequalOperator type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_UnequalOperator type parameter std::vector, std::allocator > > OK -107: StringTestCommon_UnequalOperator type parameter std::vector > OK -107: StringTestCommon_UnequalOperator type parameter std::vector > OK -107: StringTestCommon_UnequalOperator type parameter std::vector > OK -107: StringTestCommon_UnequalOperator type parameter std::deque, std::allocator > > OK -107: StringTestCommon_UnequalOperator type parameter std::deque > OK -107: StringTestCommon_UnequalOperator type parameter std::deque > OK -107: StringTestCommon_UnequalOperator type parameter std::deque > OK -107: StringTestCommon_UnequalOperator type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_UnequalOperator type parameter std::forward_list > OK -107: StringTestCommon_UnequalOperator type parameter std::forward_list > OK -107: StringTestCommon_UnequalOperator type parameter std::forward_list > OK -107: StringTestCommon_UnequalOperator type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_UnequalOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_UnequalOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_UnequalOperator type parameter std::__cxx11::list > OK -107: StringTestCommon_Assign type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_Assign type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Assign type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Assign type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Assign type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_Assign type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Assign type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Assign type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Assign type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Assign type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Assign type parameter seqan::String > > OK -107: StringTestCommon_Assign type parameter seqan::String > > OK -107: StringTestCommon_Assign type parameter seqan::String > > OK -107: StringTestCommon_Assign type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_Assign type parameter seqan::String > OK -107: StringTestCommon_Assign type parameter seqan::String > OK -107: StringTestCommon_Assign type parameter seqan::String > OK -107: StringTestCommon_Assign type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_Assign type parameter seqan::String > OK -107: StringTestCommon_Assign type parameter seqan::String > OK -107: StringTestCommon_Assign type parameter seqan::String > OK -107: StringTestCommon_Assign type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_Assign type parameter seqan::String > OK -107: StringTestCommon_Assign type parameter seqan::String > OK -107: StringTestCommon_Assign type parameter seqan::String > OK -107: StringTestCommon_Assign type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Assign type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Assign type parameter std::vector, std::allocator > > OK -107: StringTestCommon_Assign type parameter std::vector > OK -107: StringTestCommon_Assign type parameter std::vector > OK -107: StringTestCommon_Assign type parameter std::vector > OK -107: StringTestCommon_Assign type parameter std::deque, std::allocator > > OK -107: StringTestCommon_Assign type parameter std::deque > OK -107: StringTestCommon_Assign type parameter std::deque > OK -107: StringTestCommon_Assign type parameter std::deque > OK -107: StringTestCommon_Assign type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_Assign type parameter std::forward_list > OK -107: StringTestCommon_Assign type parameter std::forward_list > OK -107: StringTestCommon_Assign type parameter std::forward_list > OK -107: StringTestCommon_Assign type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_Assign type parameter std::__cxx11::list > OK -107: StringTestCommon_Assign type parameter std::__cxx11::list > OK -107: StringTestCommon_Assign type parameter std::__cxx11::list > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String > > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String > > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String > > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String > OK -107: StringTestCommon_OperatorAssign type parameter seqan::String > OK -107: StringTestCommon_OperatorAssign type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_OperatorAssign type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_OperatorAssign type parameter std::vector, std::allocator > > OK -107: StringTestCommon_OperatorAssign type parameter std::vector > OK -107: StringTestCommon_OperatorAssign type parameter std::vector > OK -107: StringTestCommon_OperatorAssign type parameter std::vector > OK -107: StringTestCommon_OperatorAssign type parameter std::deque, std::allocator > > OK -107: StringTestCommon_OperatorAssign type parameter std::deque > OK -107: StringTestCommon_OperatorAssign type parameter std::deque > OK -107: StringTestCommon_OperatorAssign type parameter std::deque > OK -107: StringTestCommon_OperatorAssign type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_OperatorAssign type parameter std::forward_list > OK -107: StringTestCommon_OperatorAssign type parameter std::forward_list > OK -107: StringTestCommon_OperatorAssign type parameter std::forward_list > OK -107: StringTestCommon_OperatorAssign type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_OperatorAssign type parameter std::__cxx11::list > OK -107: StringTestCommon_OperatorAssign type parameter std::__cxx11::list > OK -107: StringTestCommon_OperatorAssign type parameter std::__cxx11::list > OK -107: StringTestCommon_Swap type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_Swap type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Swap type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Swap type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Swap type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_Swap type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Swap type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Swap type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Swap type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Swap type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Swap type parameter seqan::String > > OK -107: StringTestCommon_Swap type parameter seqan::String > > OK -107: StringTestCommon_Swap type parameter seqan::String > > OK -107: StringTestCommon_Swap type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_Swap type parameter seqan::String > OK -107: StringTestCommon_Swap type parameter seqan::String > OK -107: StringTestCommon_Swap type parameter seqan::String > OK -107: StringTestCommon_Swap type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_Swap type parameter seqan::String > OK -107: StringTestCommon_Swap type parameter seqan::String > OK -107: StringTestCommon_Swap type parameter seqan::String > OK -107: StringTestCommon_Swap type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_Swap type parameter seqan::String > OK -107: StringTestCommon_Swap type parameter seqan::String > OK -107: StringTestCommon_Swap type parameter seqan::String > OK -107: StringTestCommon_Swap type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Swap type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Swap type parameter std::vector, std::allocator > > OK -107: StringTestCommon_Swap type parameter std::vector > OK -107: StringTestCommon_Swap type parameter std::vector > OK -107: StringTestCommon_Swap type parameter std::vector > OK -107: StringTestCommon_Swap type parameter std::deque, std::allocator > > OK -107: StringTestCommon_Swap type parameter std::deque > OK -107: StringTestCommon_Swap type parameter std::deque > OK -107: StringTestCommon_Swap type parameter std::deque > OK -107: StringTestCommon_Swap type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_Swap type parameter std::forward_list > OK -107: StringTestCommon_Swap type parameter std::forward_list > OK -107: StringTestCommon_Swap type parameter std::forward_list > OK -107: StringTestCommon_Swap type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_Swap type parameter std::__cxx11::list > OK -107: StringTestCommon_Swap type parameter std::__cxx11::list > OK -107: StringTestCommon_Swap type parameter std::__cxx11::list > OK -107: StringTestCommon_Reverse type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_Reverse type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Reverse type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Reverse type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Reverse type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_Reverse type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Reverse type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Reverse type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Reverse type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Reverse type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Reverse type parameter seqan::String > > OK -107: StringTestCommon_Reverse type parameter seqan::String > > OK -107: StringTestCommon_Reverse type parameter seqan::String > > OK -107: StringTestCommon_Reverse type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_Reverse type parameter seqan::String > OK -107: StringTestCommon_Reverse type parameter seqan::String > OK -107: StringTestCommon_Reverse type parameter seqan::String > OK -107: StringTestCommon_Reverse type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_Reverse type parameter seqan::String > OK -107: StringTestCommon_Reverse type parameter seqan::String > OK -107: StringTestCommon_Reverse type parameter seqan::String > OK -107: StringTestCommon_Reverse type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_Reverse type parameter seqan::String > OK -107: StringTestCommon_Reverse type parameter seqan::String > OK -107: StringTestCommon_Reverse type parameter seqan::String > OK -107: StringTestCommon_Reverse type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Reverse type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Reverse type parameter std::vector, std::allocator > > OK -107: StringTestCommon_Reverse type parameter std::vector > OK -107: StringTestCommon_Reverse type parameter std::vector > OK -107: StringTestCommon_Reverse type parameter std::vector > OK -107: StringTestCommon_Reverse type parameter std::deque, std::allocator > > OK -107: StringTestCommon_Reverse type parameter std::deque > OK -107: StringTestCommon_Reverse type parameter std::deque > OK -107: StringTestCommon_Reverse type parameter std::deque > OK -107: StringTestCommon_Reverse type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_Reverse type parameter std::forward_list > OK -107: StringTestCommon_Reverse type parameter std::forward_list > OK -107: StringTestCommon_Reverse type parameter std::forward_list > OK -107: StringTestCommon_Reverse type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_Reverse type parameter std::__cxx11::list > OK -107: StringTestCommon_Reverse type parameter std::__cxx11::list > OK -107: StringTestCommon_Reverse type parameter std::__cxx11::list > OK -107: StringTestCommon_AssignValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_AssignValue type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_AssignValue type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_AssignValue type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_AssignValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_AssignValue type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_AssignValue type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_AssignValue type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_AssignValue type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_AssignValue type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_AssignValue type parameter seqan::String > > OK -107: StringTestCommon_AssignValue type parameter seqan::String > > OK -107: StringTestCommon_AssignValue type parameter seqan::String > > OK -107: StringTestCommon_AssignValue type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_AssignValue type parameter seqan::String > OK -107: StringTestCommon_AssignValue type parameter seqan::String > OK -107: StringTestCommon_AssignValue type parameter seqan::String > OK -107: StringTestCommon_AssignValue type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_AssignValue type parameter seqan::String > OK -107: StringTestCommon_AssignValue type parameter seqan::String > OK -107: StringTestCommon_AssignValue type parameter seqan::String > OK -107: StringTestCommon_AssignValue type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_AssignValue type parameter seqan::String > OK -107: StringTestCommon_AssignValue type parameter seqan::String > OK -107: StringTestCommon_AssignValue type parameter seqan::String > OK -107: StringTestCommon_AssignValue type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_AssignValue type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_AssignValue type parameter std::vector, std::allocator > > OK -107: StringTestCommon_AssignValue type parameter std::vector > OK -107: StringTestCommon_AssignValue type parameter std::vector > OK -107: StringTestCommon_AssignValue type parameter std::vector > OK -107: StringTestCommon_AssignValue type parameter std::deque, std::allocator > > OK -107: StringTestCommon_AssignValue type parameter std::deque > OK -107: StringTestCommon_AssignValue type parameter std::deque > OK -107: StringTestCommon_AssignValue type parameter std::deque > OK -107: StringTestCommon_AssignValue type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_AssignValue type parameter std::forward_list > OK -107: StringTestCommon_AssignValue type parameter std::forward_list > OK -107: StringTestCommon_AssignValue type parameter std::forward_list > OK -107: StringTestCommon_AssignValue type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_AssignValue type parameter std::__cxx11::list > OK -107: StringTestCommon_AssignValue type parameter std::__cxx11::list > OK -107: StringTestCommon_AssignValue type parameter std::__cxx11::list > OK -107: StringTestCommon_Append type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_Append type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Append type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Append type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Append type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_Append type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Append type parameter seqan::String >, unsigned long> > > OK -115: test_store_io_sam OK -103/415 Test #118: test_test_tabix_io ................................................................ Passed 0.17 sec -126: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -126: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -126: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_global_alignment_unbanded. -126: Return code was 0. -126: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_unbanded.cpp.stdout", "None". -126: Standard output was as expected. -126: Standard error was as expected. -104/415 Test #126: test_demo_dox_align_global_alignment_unbanded ..................................... Passed 0.14 sec +test 143 + Start 143: test_demo_dox_graph_algorithms_kruskals_algorithm + +143: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_kruskals_algorithm" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/kruskals_algorithm.cpp.stdout" +143: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +143: Test timeout computed to be: 10000000 +test 144 + Start 144: test_demo_dox_graph_algorithms_prims_algorithm + +144: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_prims_algorithm" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/prims_algorithm.cpp.stdout" +144: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +144: Test timeout computed to be: 10000000 +85: test_parallel_atomic_min OK +85: test_parallel_atomic_max OK +85: test_parallel_splitter_equidistant OK +85: test_parallel_splitting_compute_splitters OK +85: test_parallel_sum OK +85: test_parallel_partial_sum OK +85: test_parallel_queue_simple OK +85: test_parallel_queue_resize OK +85: test_parallel_queue_non_pod OK +119: test_translation_onestring_multiframe_parallel OK +119: test_translation_onestring_multiframe_concatdirect_parallel OK 123: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 123: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 123: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_compute_alignment_stats. @@ -306268,32 +305832,7 @@ 123: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/compute_alignment_stats.cpp.stdout", "None". 123: Standard output was as expected. 123: Standard error was as expected. -105/415 Test #123: test_demo_dox_align_compute_alignment_stats ....................................... Passed 0.15 sec -124: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -124: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -124: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_gaps_example. -124: Return code was 0. -124: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/gaps_example.cpp.stdout", "None". -124: Standard output was as expected. -124: Standard error was as expected. -20: test_align_parallel_wavefront_multiple_global_alignment_simd OK -20: ************************************** -20: Total Tests: 3 -20: Skipped: 0 -20: Errors: 0 -20: ************************************** -106/415 Test #20: test_test_align_parallel_algorithm_sse4_host ...................................... Passed 0.67 sec -87: test_pipe_test_external_string OK -122: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -122: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -122: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_align. -122: Return code was 0. -122: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/align.cpp.stdout", "None". -122: Standard output was as expected. -122: Standard error was as expected. -125: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -125: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -125: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_global_alignment_banded. +105/415 Test #123: test_demo_dox_align_compute_alignment_stats ....................................... Passed 0.28 sec 128: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 128: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 128: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_extend_extend_alignment. @@ -306301,18 +305840,203 @@ 128: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_extend/extend_alignment.cpp.stdout", "None". 128: Standard output was as expected. 128: Standard error was as expected. -test 143 - Start 143: test_demo_dox_graph_algorithms_kruskals_algorithm - -143: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_kruskals_algorithm" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/kruskals_algorithm.cpp.stdout" -143: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -143: Test timeout computed to be: 10000000 -test 144 - Start 144: test_demo_dox_graph_algorithms_prims_algorithm - -144: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_prims_algorithm" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/prims_algorithm.cpp.stdout" -144: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -144: Test timeout computed to be: 10000000 +106/415 Test #128: test_demo_dox_align_extend_extend_alignment ....................................... Passed 0.48 sec +129: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +129: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +129: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_split_split_alignment. +129: Return code was 0. +129: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_split/split_alignment.cpp.stdout", "None". +129: Standard output was as expected. +129: Standard error was as expected. +107/415 Test #129: test_demo_dox_align_split_split_alignment ......................................... Passed 0.47 sec +125: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +125: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +125: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_global_alignment_banded. +125: Return code was 0. +125: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_banded.cpp.stdout", "None". +125: Standard output was as expected. +125: Standard error was as expected. +108/415 Test #125: test_demo_dox_align_global_alignment_banded ....................................... Passed 0.49 sec +130: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +130: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +130: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_bam_io_bam_tags_dict. +130: Return code was 0. +130: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bam_io/bam_tags_dict.cpp.stdout", "None". +130: Standard output was as expected. +130: Standard error was as expected. +109/415 Test #130: test_demo_dox_bam_io_bam_tags_dict ................................................ Passed 0.47 sec +126: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +126: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +126: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_global_alignment_unbanded. +126: Return code was 0. +126: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_unbanded.cpp.stdout", "None". +126: Standard output was as expected. +126: Standard error was as expected. +110/415 Test #126: test_demo_dox_align_global_alignment_unbanded ..................................... Passed 0.49 sec +127: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +127: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +127: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_integrate_align. +127: Return code was 0. +127: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/integrate_align.cpp.stdout", "None". +127: Standard output was as expected. +127: Standard error was as expected. +111/415 Test #127: test_demo_dox_align_integrate_align ............................................... Passed 0.49 sec +68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK +68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +122: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +122: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +122: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_align. +122: Return code was 0. +122: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/align.cpp.stdout", "None". +122: Standard output was as expected. +122: Standard error was as expected. +131: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +131: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +131: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_basic_zip_iterator. +131: Return code was 0. +131: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/zip_iterator.cpp.stdout", "None". +131: Standard output was as expected. +131: Standard error was as expected. +112/415 Test #131: test_demo_dox_basic_zip_iterator .................................................. Passed 0.46 sec +69: TopDownIndexIteratorTest_Constructor type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index >, seqan::FMIndex > > OK +69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +72: IndexFinderTest_FindFirstChar type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +72: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::IndexSa > OK +72: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::IndexEsa > OK +72: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +72: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +72: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +72: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::FMIndex > > OK +72: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +72: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +72: IndexFinderTest_StdString type parameter seqan::Index >, seqan::IndexSa > OK +72: IndexFinderTest_StdString type parameter seqan::Index >, seqan::IndexEsa > OK +72: IndexFinderTest_StdString type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +72: IndexFinderTest_StdString type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +72: IndexFinderTest_StdString type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +72: IndexFinderTest_StdString type parameter seqan::Index >, seqan::FMIndex > > OK +72: IndexFinderTest_StdString type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +72: IndexFinderTest_StdString type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +72: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::IndexSa > OK +72: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::IndexEsa > OK +72: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +72: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +72: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +72: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::FMIndex > > OK +72: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +72: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +72: ************************************** +72: Total Tests: 32 +72: Skipped: 0 +72: Errors: 0 +72: ************************************** +113/415 Test #72: test_test_index_finder ............................................................ Passed 1.04 sec +107: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: ticket1108 OK +106: String_Packed_Extension OK +106: ************************************** +106: Total Tests: 41 +106: Skipped: 0 +106: Errors: 0 +106: ************************************** +114/415 Test #106: test_test_sequence ................................................................ Passed 0.61 sec +105: test_stream_read_embl_single_batch_mmap OK +105: test_stream_read_genbank_single_char_array_stream OK +105: test_stream_read_genbank_record_char_array_stream OK +80: .................................................................................................... +80: test_map_map OK +80: ************************************** +80: Total Tests: 1 +80: Skipped: 0 +80: Errors: 0 +80: ************************************** +115/415 Test #80: test_test_map ..................................................................... Passed 1.01 sec +132: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +132: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +132: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_consensus_consensus_alignment. +132: Return code was 0. +132: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/consensus/consensus_alignment.cpp.stdout", "None". +132: Standard output was as expected. +132: Standard error was as expected. +116/415 Test #132: test_demo_dox_consensus_consensus_alignment ....................................... Passed 0.45 sec +133: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +133: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +133: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_index. +133: Return code was 0. +133: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_index.cpp.stdout", "None". +133: Standard output was as expected. +133: Standard error was as expected. +117/415 Test #133: test_demo_dox_find_finder_index ................................................... Passed 0.45 sec +134: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +134: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +134: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_online. +134: Return code was 0. +134: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_online.cpp.stdout", "None". +134: Standard output was as expected. +134: Standard error was as expected. +118/415 Test #134: test_demo_dox_find_finder_online .................................................. Passed 0.44 sec +135: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +135: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +135: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_all_pairs_shortest_path. +135: Return code was 0. +135: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/all_pairs_shortest_path.cpp.stdout", "None". +135: Standard output was as expected. +135: Standard error was as expected. +119/415 Test #135: test_demo_dox_graph_algorithms_all_pairs_shortest_path ............................ Passed 0.44 sec +136: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +136: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +136: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_bellman_ford_algorithm. +136: Return code was 0. +136: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/bellman_ford_algorithm.cpp.stdout", "None". +136: Standard output was as expected. +136: Standard error was as expected. +120/415 Test #136: test_demo_dox_graph_algorithms_bellman_ford_algorithm ............................. Passed 0.43 sec +137: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +137: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +137: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_breadth_first_search. +137: Return code was 0. +137: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/breadth_first_search.cpp.stdout", "None". +137: Standard output was as expected. +137: Standard error was as expected. +121/415 Test #137: test_demo_dox_graph_algorithms_breadth_first_search ............................... Passed 0.43 sec +138: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +138: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +138: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_dag_shortest_path. +138: Return code was 0. +138: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/dag_shortest_path.cpp.stdout", "None". +138: Standard output was as expected. +138: Standard error was as expected. +122/415 Test #138: test_demo_dox_graph_algorithms_dag_shortest_path .................................. Passed 0.42 sec +139: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +139: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +139: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_depth_first_search. +139: Return code was 0. +139: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/depth_first_search.cpp.stdout", "None". +139: Standard output was as expected. +139: Standard error was as expected. +123/415 Test #139: test_demo_dox_graph_algorithms_depth_first_search ................................. Passed 0.42 sec +140: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +140: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +140: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_dijkstra. +140: Return code was 0. +140: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/dijkstra.cpp.stdout", "None". +140: Standard output was as expected. +140: Standard error was as expected. +124/415 Test #140: test_demo_dox_graph_algorithms_dijkstra ........................................... Passed 0.41 sec +141: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +141: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +141: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_floyd_warshall_algorithm. +141: Return code was 0. +141: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/floyd_warshall_algorithm.cpp.stdout", "None". +141: Standard output was as expected. +141: Standard error was as expected. +125/415 Test #141: test_demo_dox_graph_algorithms_floyd_warshall_algorithm ........................... Passed 0.41 sec test 145 Start 145: test_demo_dox_graph_algorithms_strongly_connected_components @@ -306337,468 +306061,6 @@ 148: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_types_graph_algo_dijkstra" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_types/graph_algo_dijkstra.cpp.stdout" 148: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 148: Test timeout computed to be: 10000000 -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 3u, 3u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK -107: StringTestCommon_Append type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Append type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Append type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Append type parameter seqan::String > > OK -107: StringTestCommon_Append type parameter seqan::String > > OK -107: StringTestCommon_Append type parameter seqan::String > > OK -107: StringTestCommon_Append type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_Append type parameter seqan::String > OK -107: StringTestCommon_Append type parameter seqan::String > OK -107: StringTestCommon_Append type parameter seqan::String > OK -107: StringTestCommon_Append type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_Append type parameter seqan::String > OK -107: StringTestCommon_Append type parameter seqan::String > OK -107: StringTestCommon_Append type parameter seqan::String > OK -107: StringTestCommon_Append type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_Append type parameter seqan::String > OK -107: StringTestCommon_Append type parameter seqan::String > OK -107: StringTestCommon_Append type parameter seqan::String > OK -107: StringTestCommon_Append type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Append type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Append type parameter std::vector, std::allocator > > OK -107: StringTestCommon_Append type parameter std::vector > OK -107: StringTestCommon_Append type parameter std::vector > OK -107: StringTestCommon_Append type parameter std::vector > OK -107: StringTestCommon_Append type parameter std::deque, std::allocator > > OK -107: StringTestCommon_Append type parameter std::deque > OK -107: StringTestCommon_Append type parameter std::deque > OK -107: StringTestCommon_Append type parameter std::deque > OK -107: StringTestCommon_Append type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_Append type parameter std::forward_list > OK -107: StringTestCommon_Append type parameter std::forward_list > OK -107: StringTestCommon_Append type parameter std::forward_list > OK -107: StringTestCommon_Append type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_Append type parameter std::__cxx11::list > OK -107: StringTestCommon_Append type parameter std::__cxx11::list > OK -107: StringTestCommon_Append type parameter std::__cxx11::list > OK -107: StringTestCommon_AppendValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_AppendValue type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_AppendValue type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_AppendValue type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_AppendValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_AppendValue type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_AppendValue type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_AppendValue type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_AppendValue type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_AppendValue type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_AppendValue type parameter seqan::String > > OK -107: StringTestCommon_AppendValue type parameter seqan::String > > OK -107: StringTestCommon_AppendValue type parameter seqan::String > > OK -107: StringTestCommon_AppendValue type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_AppendValue type parameter seqan::String > OK -107: StringTestCommon_AppendValue type parameter seqan::String > OK -107: StringTestCommon_AppendValue type parameter seqan::String > OK -107: StringTestCommon_AppendValue type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_AppendValue type parameter seqan::String > OK -107: StringTestCommon_AppendValue type parameter seqan::String > OK -107: StringTestCommon_AppendValue type parameter seqan::String > OK -107: StringTestCommon_AppendValue type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_AppendValue type parameter seqan::String > OK -107: StringTestCommon_AppendValue type parameter seqan::String > OK -107: StringTestCommon_AppendValue type parameter seqan::String > OK -107: StringTestCommon_AppendValue type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_AppendValue type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_AppendValue type parameter std::vector, std::allocator > > OK -107: StringTestCommon_AppendValue type parameter std::vector > OK -107: StringTestCommon_AppendValue type parameter std::vector > OK -107: StringTestCommon_AppendValue type parameter std::vector > OK -107: StringTestCommon_AppendValue type parameter std::deque, std::allocator > > OK -107: StringTestCommon_AppendValue type parameter std::deque > OK -107: StringTestCommon_AppendValue type parameter std::deque > OK -107: StringTestCommon_AppendValue type parameter std::deque > OK -107: StringTestCommon_AppendValue type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_AppendValue type parameter std::forward_list > OK -107: StringTestCommon_AppendValue type parameter std::forward_list > OK -107: StringTestCommon_AppendValue type parameter std::forward_list > OK -107: StringTestCommon_AppendValue type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_AppendValue type parameter std::__cxx11::list > OK -107: StringTestCommon_AppendValue type parameter std::__cxx11::list > OK -107: StringTestCommon_AppendValue type parameter std::__cxx11::list > OK -107: StringTestCommon_Back type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_Back type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Back type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Back type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Back type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_Back type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Back type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Back type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Back type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Back type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Back type parameter seqan::String > > OK -107: StringTestCommon_Back type parameter seqan::String > > OK -107: StringTestCommon_Back type parameter seqan::String > > OK -107: StringTestCommon_Back type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_Back type parameter seqan::String > OK -107: StringTestCommon_Back type parameter seqan::String > OK -107: StringTestCommon_Back type parameter seqan::String > OK -107: StringTestCommon_Back type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_Back type parameter seqan::String > OK -107: StringTestCommon_Back type parameter seqan::String > OK -107: StringTestCommon_Back type parameter seqan::String > OK -107: StringTestCommon_Back type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_Back type parameter seqan::String > OK -107: StringTestCommon_Back type parameter seqan::String > OK -107: StringTestCommon_Back type parameter seqan::String > OK -107: StringTestCommon_Back type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Back type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Back type parameter std::vector, std::allocator > > OK -107: StringTestCommon_Back type parameter std::vector > OK -107: StringTestCommon_Back type parameter std::vector > OK -107: StringTestCommon_Back type parameter std::vector > OK -107: StringTestCommon_Back type parameter std::deque, std::allocator > > OK -107: StringTestCommon_Back type parameter std::deque > OK -107: StringTestCommon_Back type parameter std::deque > OK -107: StringTestCommon_Back type parameter std::deque > OK -107: StringTestCommon_Back type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_Back type parameter std::forward_list > OK -107: StringTestCommon_Back type parameter std::forward_list > OK -107: StringTestCommon_Back type parameter std::forward_list > OK -107: StringTestCommon_Back type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_Back type parameter std::__cxx11::list > OK -107: StringTestCommon_Back type parameter std::__cxx11::list > OK -107: StringTestCommon_Back type parameter std::__cxx11::list > OK -107: StringTestCommon_Begin type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_Begin type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Begin type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Begin type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Begin type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_Begin type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Begin type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Begin type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Begin type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Begin type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Begin type parameter seqan::String > > OK -107: StringTestCommon_Begin type parameter seqan::String > > OK -107: StringTestCommon_Begin type parameter seqan::String > > OK -107: StringTestCommon_Begin type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_Begin type parameter seqan::String > OK -107: StringTestCommon_Begin type parameter seqan::String > OK -107: StringTestCommon_Begin type parameter seqan::String > OK -107: StringTestCommon_Begin type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_Begin type parameter seqan::String > OK -107: StringTestCommon_Begin type parameter seqan::String > OK -107: StringTestCommon_Begin type parameter seqan::String > OK -107: StringTestCommon_Begin type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_Begin type parameter seqan::String > OK -107: StringTestCommon_Begin type parameter seqan::String > OK -107: StringTestCommon_Begin type parameter seqan::String > OK -107: StringTestCommon_Begin type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Begin type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Begin type parameter std::vector, std::allocator > > OK -107: StringTestCommon_Begin type parameter std::vector > OK -107: StringTestCommon_Begin type parameter std::vector > OK -107: StringTestCommon_Begin type parameter std::vector > OK -107: StringTestCommon_Begin type parameter std::deque, std::allocator > > OK -107: StringTestCommon_Begin type parameter std::deque > OK -107: StringTestCommon_Begin type parameter std::deque > OK -107: StringTestCommon_Begin type parameter std::deque > OK -107: StringTestCommon_Begin type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_Begin type parameter std::forward_list > OK -107: StringTestCommon_Begin type parameter std::forward_list > OK -107: StringTestCommon_Begin type parameter std::forward_list > OK -107: StringTestCommon_Begin type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_Begin type parameter std::__cxx11::list > OK -107: StringTestCommon_Begin type parameter std::__cxx11::list > OK -107: StringTestCommon_Begin type parameter std::__cxx11::list > OK -107: StringTestCommon_BeginPosition type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_BeginPosition type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_BeginPosition type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_BeginPosition type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_BeginPosition type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_BeginPosition type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_BeginPosition type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_BeginPosition type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_BeginPosition type parameter seqan::String > > OK -107: StringTestCommon_BeginPosition type parameter seqan::String > > OK -107: StringTestCommon_BeginPosition type parameter seqan::String > > OK -107: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_BeginPosition type parameter seqan::String > OK -107: StringTestCommon_BeginPosition type parameter seqan::String > OK -107: StringTestCommon_BeginPosition type parameter seqan::String > OK -107: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_BeginPosition type parameter seqan::String > OK -107: StringTestCommon_BeginPosition type parameter seqan::String > OK -107: StringTestCommon_BeginPosition type parameter seqan::String > OK -107: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_BeginPosition type parameter seqan::String > OK -107: StringTestCommon_BeginPosition type parameter seqan::String > OK -107: StringTestCommon_BeginPosition type parameter seqan::String > OK -107: StringTestCommon_BeginPosition type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_BeginPosition type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_BeginPosition type parameter std::vector, std::allocator > > OK -107: StringTestCommon_BeginPosition type parameter std::vector > OK -107: StringTestCommon_BeginPosition type parameter std::vector > OK -107: StringTestCommon_BeginPosition type parameter std::vector > OK -107: StringTestCommon_BeginPosition type parameter std::deque, std::allocator > > OK -107: StringTestCommon_BeginPosition type parameter std::deque > OK -107: StringTestCommon_BeginPosition type parameter std::deque > OK -107: StringTestCommon_BeginPosition type parameter std::deque > OK -107: StringTestCommon_BeginPosition type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_BeginPosition type parameter std::forward_list > OK -107: StringTestCommon_BeginPosition type parameter std::forward_list > OK -107: StringTestCommon_BeginPosition type parameter std::forward_list > OK -107: StringTestCommon_BeginPosition type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_BeginPosition type parameter std::__cxx11::list > OK -107: StringTestCommon_BeginPosition type parameter std::__cxx11::list > OK -107: StringTestCommon_BeginPosition type parameter std::__cxx11::list > OK -107: StringTestCommon_Capacity type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_Capacity type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Capacity type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Capacity type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Capacity type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_Capacity type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Capacity type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Capacity type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Capacity type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Capacity type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Capacity type parameter seqan::String > > OK -107: StringTestCommon_Capacity type parameter seqan::String > > OK -107: StringTestCommon_Capacity type parameter seqan::String > > OK -107: StringTestCommon_Capacity type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_Capacity type parameter seqan::String > OK -107: StringTestCommon_Capacity type parameter seqan::String > OK -107: StringTestCommon_Capacity type parameter seqan::String > OK -107: StringTestCommon_Capacity type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_Capacity type parameter seqan::String > OK -107: StringTestCommon_Capacity type parameter seqan::String > OK -107: StringTestCommon_Capacity type parameter seqan::String > OK -107: StringTestCommon_Capacity type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_Capacity type parameter seqan::String > OK -107: StringTestCommon_Capacity type parameter seqan::String > OK -107: StringTestCommon_Capacity type parameter seqan::String > OK -107: StringTestCommon_Capacity type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Capacity type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Capacity type parameter std::vector, std::allocator > > OK -107: StringTestCommon_Capacity type parameter std::vector > OK -107: StringTestCommon_Capacity type parameter std::vector > OK -107: StringTestCommon_Capacity type parameter std::vector > OK -107: StringTestCommon_Capacity type parameter std::deque, std::allocator > > OK -107: StringTestCommon_Capacity type parameter std::deque > OK -107: StringTestCommon_Capacity type parameter std::deque > OK -107: StringTestCommon_Capacity type parameter std::deque > OK -107: StringTestCommon_Capacity type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_Capacity type parameter std::forward_list > OK -107: StringTestCommon_Capacity type parameter std::forward_list > OK -107: StringTestCommon_Capacity type parameter std::forward_list > OK -107: StringTestCommon_Capacity type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_Capacity type parameter std::__cxx11::list > OK -107: StringTestCommon_Capacity type parameter std::__cxx11::list > OK -107: StringTestCommon_Capacity type parameter std::__cxx11::list > OK -107: StringTestCommon_Clear type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_Clear type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Clear type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Clear type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Clear type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_Clear type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Clear type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Clear type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Clear type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Clear type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Clear type parameter seqan::String > > OK -107: StringTestCommon_Clear type parameter seqan::String > > OK -107: StringTestCommon_Clear type parameter seqan::String > > OK -107: StringTestCommon_Clear type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_Clear type parameter seqan::String > OK -107: StringTestCommon_Clear type parameter seqan::String > OK -107: StringTestCommon_Clear type parameter seqan::String > OK -107: StringTestCommon_Clear type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_Clear type parameter seqan::String > OK -107: StringTestCommon_Clear type parameter seqan::String > OK -107: StringTestCommon_Clear type parameter seqan::String > OK -107: StringTestCommon_Clear type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_Clear type parameter seqan::String > OK -107: StringTestCommon_Clear type parameter seqan::String > OK -107: StringTestCommon_Clear type parameter seqan::String > OK -107: StringTestCommon_Clear type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Clear type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Clear type parameter std::vector, std::allocator > > OK -107: StringTestCommon_Clear type parameter std::vector > OK -107: StringTestCommon_Clear type parameter std::vector > OK -107: StringTestCommon_Clear type parameter std::vector > OK -107: StringTestCommon_Clear type parameter std::deque, std::allocator > > OK -107: StringTestCommon_Clear type parameter std::deque > OK -107: StringTestCommon_Clear type parameter std::deque > OK -107: StringTestCommon_Clear type parameter std::deque > OK -107: StringTestCommon_Clear type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_Clear type parameter std::forward_list > OK -107: StringTestCommon_Clear type parameter std::forward_list > OK -107: StringTestCommon_Clear type parameter std::forward_list > OK -107: StringTestCommon_Clear type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_Clear type parameter std::__cxx11::list > OK -107: StringTestCommon_Clear type parameter std::__cxx11::list > OK -107: StringTestCommon_Clear type parameter std::__cxx11::list > OK -107: StringTestCommon_End type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_End type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_End type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_End type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_End type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_End type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_End type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_End type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_End type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_End type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_End type parameter seqan::String > > OK -107: StringTestCommon_End type parameter seqan::String > > OK -107: StringTestCommon_End type parameter seqan::String > > OK -107: StringTestCommon_End type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_End type parameter seqan::String > OK -107: StringTestCommon_End type parameter seqan::String > OK -107: StringTestCommon_End type parameter seqan::String > OK -107: StringTestCommon_End type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_End type parameter seqan::String > OK -107: StringTestCommon_End type parameter seqan::String > OK -107: StringTestCommon_End type parameter seqan::String > OK -107: StringTestCommon_End type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_End type parameter seqan::String > OK -107: StringTestCommon_End type parameter seqan::String > OK -107: StringTestCommon_End type parameter seqan::String > OK -107: StringTestCommon_End type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_End type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_End type parameter std::vector, std::allocator > > OK -107: StringTestCommon_End type parameter std::vector > OK -107: StringTestCommon_End type parameter std::vector > OK -107: StringTestCommon_End type parameter std::vector > OK -107: StringTestCommon_End type parameter std::deque, std::allocator > > OK -107: StringTestCommon_End type parameter std::deque > OK -107: StringTestCommon_End type parameter std::deque > OK -107: StringTestCommon_End type parameter std::deque > OK -107: StringTestCommon_End type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_End type parameter std::forward_list > OK -107: StringTestCommon_End type parameter std::forward_list > OK -107: StringTestCommon_End type parameter std::forward_list > OK -107: StringTestCommon_End type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_End type parameter std::__cxx11::list > OK -107: StringTestCommon_End type parameter std::__cxx11::list > OK -107: StringTestCommon_End type parameter std::__cxx11::list > OK -107: StringTestCommon_EndPosition type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_EndPosition type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_EndPosition type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_EndPosition type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_EndPosition type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_EndPosition type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_EndPosition type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_EndPosition type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_EndPosition type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_EndPosition type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_EndPosition type parameter seqan::String > > OK -107: StringTestCommon_EndPosition type parameter seqan::String > > OK -107: StringTestCommon_EndPosition type parameter seqan::String > > OK -107: StringTestCommon_EndPosition type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_EndPosition type parameter seqan::String > OK -107: StringTestCommon_EndPosition type parameter seqan::String > OK -107: StringTestCommon_EndPosition type parameter seqan::String > OK -107: StringTestCommon_EndPosition type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_EndPosition type parameter seqan::String > OK -107: StringTestCommon_EndPosition type parameter seqan::String > OK -107: StringTestCommon_EndPosition type parameter seqan::String > OK -107: StringTestCommon_EndPosition type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_EndPosition type parameter seqan::String > OK -107: StringTestCommon_EndPosition type parameter seqan::String > OK -107: StringTestCommon_EndPosition type parameter seqan::String > OK -107: StringTestCommon_EndPosition type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_EndPosition type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_EndPosition type parameter std::vector, std::allocator > > OK -107: StringTestCommon_EndPosition type parameter std::vector > OK -107: StringTestCommon_EndPosition type parameter std::vector > OK -107: StringTestCommon_EndPosition type parameter std::vector > OK -107: StringTestCommon_EndPosition type parameter std::deque, std::allocator > > OK -107: StringTestCommon_EndPosition type parameter std::deque > OK -107: StringTestCommon_EndPosition type parameter std::deque > OK -107: StringTestCommon_EndPosition type parameter std::deque > OK -107: StringTestCommon_EndPosition type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_EndPosition type parameter std::forward_list > OK -107: StringTestCommon_EndPosition type parameter std::forward_list > OK -107: StringTestCommon_EndPosition type parameter std::forward_list > OK -107: StringTestCommon_EndPosition type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_EndPosition type parameter std::__cxx11::list > OK -107: StringTestCommon_EndPosition type parameter std::__cxx11::list > OK -107: StringTestCommon_EndPosition type parameter std::__cxx11::list > OK -107: StringTestCommon_Erase type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_Erase type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Erase type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Erase type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Erase type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_Erase type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Erase type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Erase type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Erase type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Erase type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Erase type parameter seqan::String > > OK -107: StringTestCommon_Erase type parameter seqan::String > > OK -107: StringTestCommon_Erase type parameter seqan::String > > OK -107: StringTestCommon_Erase type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_Erase type parameter seqan::String > OK -107: StringTestCommon_Erase type parameter seqan::String > OK -107: StringTestCommon_Erase type parameter seqan::String > OK -107: StringTestCommon_Erase type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_Erase type parameter seqan::String > OK -107: StringTestCommon_Erase type parameter seqan::String > OK -107: StringTestCommon_Erase type parameter seqan::String > OK -107: StringTestCommon_Erase type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_Erase type parameter seqan::String > OK -107: StringTestCommon_Erase type parameter seqan::String > OK -107: StringTestCommon_Erase type parameter seqan::String > OK -107: StringTestCommon_Erase type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Erase type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Erase type parameter std::vector, std::allocator > > OK -107: StringTestCommon_Erase type parameter std::vector > OK -107: StringTestCommon_Erase type parameter std::vector > OK -107: StringTestCommon_Erase type parameter std::vector > OK -107: StringTestCommon_Erase type parameter std::deque, std::allocator > > OK -107: StringTestCommon_Erase type parameter std::deque > OK -107: StringTestCommon_Erase type parameter std::deque > OK -107: StringTestCommon_Erase type parameter std::deque > OK -107: StringTestCommon_Erase type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_Erase type parameter std::forward_list > OK -107: StringTestCommon_Erase type parameter std::forward_list > OK -107: StringTestCommon_Erase type parameter std::forward_list > OK -107: StringTestCommon_Erase type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_Erase type parameter std::__cxx11::list > OK -107: StringTestCommon_Erase type parameter std::__cxx11::list > OK -107: StringTestCommon_Erase type parameter std::__cxx11::list > OK -107: StringTestCommon_EraseBack type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_EraseBack type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_EraseBack type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_EraseBack type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_EraseBack type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -130: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -130: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -130: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_bam_io_bam_tags_dict. -130: Return code was 0. -130: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bam_io/bam_tags_dict.cpp.stdout", "None". -130: Standard output was as expected. -130: Standard error was as expected. -129: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -129: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -129: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_split_split_alignment. -129: Return code was 0. -129: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_split/split_alignment.cpp.stdout", "None". -129: Standard output was as expected. -129: Standard error was as expected. -21: test_align_parallel_wavefront_multiple_global_alignment_simd OK -21: ************************************** -21: Total Tests: 3 -21: Skipped: 0 -21: Errors: 0 -21: ************************************** -131: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -131: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -66: IndexTest_IndexCreate type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -127: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -127: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -107/415 Test #21: test_test_align_parallel_algorithm_avx2_host ...................................... Passed 0.71 sec -108/415 Test #122: test_demo_dox_align_align ......................................................... Passed 0.21 sec -109/415 Test #124: test_demo_dox_align_gaps_example .................................................. Passed 0.20 sec test 149 Start 149: test_demo_dox_index_begin_atEnd_representative @@ -306817,121 +306079,6 @@ 151: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_finder" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/finder.cpp.stdout" 151: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 151: Test timeout computed to be: 10000000 -107: StringTestCommon_EraseBack type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_EraseBack type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_EraseBack type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_EraseBack type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_EraseBack type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_EraseBack type parameter seqan::String > > OK -107: StringTestCommon_EraseBack type parameter seqan::String > > OK -107: StringTestCommon_EraseBack type parameter seqan::String > > OK -107: StringTestCommon_EraseBack type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_EraseBack type parameter seqan::String > OK -107: StringTestCommon_EraseBack type parameter seqan::String > OK -107: StringTestCommon_EraseBack type parameter seqan::String > OK -107: StringTestCommon_EraseBack type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_EraseBack type parameter seqan::String > OK -107: StringTestCommon_EraseBack type parameter seqan::String > OK -107: StringTestCommon_EraseBack type parameter seqan::String > OK -107: StringTestCommon_EraseBack type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_EraseBack type parameter seqan::String > OK -107: StringTestCommon_EraseBack type parameter seqan::String > OK -107: StringTestCommon_EraseBack type parameter seqan::String > OK -107: StringTestCommon_EraseBack type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_EraseBack type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_EraseBack type parameter std::vector, std::allocator > > OK -107: StringTestCommon_EraseBack type parameter std::vector > OK -107: StringTestCommon_EraseBack type parameter std::vector > OK -107: StringTestCommon_EraseBack type parameter std::vector > OK -107: StringTestCommon_EraseBack type parameter std::deque, std::allocator > > OK -107: StringTestCommon_EraseBack type parameter std::deque > OK -107: StringTestCommon_EraseBack type parameter std::deque > OK -107: StringTestCommon_EraseBack type parameter std::deque > OK -107: StringTestCommon_EraseBack type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_EraseBack type parameter std::forward_list > OK -107: StringTestCommon_EraseBack type parameter std::forward_list > OK -107: StringTestCommon_EraseBack type parameter std::forward_list > OK -107: StringTestCommon_EraseBack type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_EraseBack type parameter std::__cxx11::list > OK -107: StringTestCommon_EraseBack type parameter std::__cxx11::list > OK -107: StringTestCommon_EraseBack type parameter std::__cxx11::list > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String >, 4194304u, 2u> > > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String >, 4194304u, 2u> > > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String >, 4194304u, 2u> > > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String >, unsigned long> > > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String >, unsigned long> > > OK -110/415 Test #130: test_demo_dox_bam_io_bam_tags_dict ................................................ Passed 0.15 sec -134: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -134: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -134: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_online. -134: Return code was 0. -134: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_online.cpp.stdout", "None". -134: Standard output was as expected. -134: Standard error was as expected. -111/415 Test #134: test_demo_dox_find_finder_online .................................................. Passed 0.13 sec -133: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -133: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -133: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_index. -133: Return code was 0. -133: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_index.cpp.stdout", "None". -133: Standard output was as expected. -133: Standard error was as expected. -135: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -135: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -135: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_all_pairs_shortest_path. -135: Return code was 0. -135: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/all_pairs_shortest_path.cpp.stdout", "None". -135: Standard output was as expected. -135: Standard error was as expected. -125: Return code was 0. -125: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_banded.cpp.stdout", "None". -125: Standard output was as expected. -125: Standard error was as expected. -112/415 Test #125: test_demo_dox_align_global_alignment_banded ....................................... Passed 0.21 sec -132: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -132: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -132: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_consensus_consensus_alignment. -113/415 Test #128: test_demo_dox_align_extend_extend_alignment ....................................... Passed 0.16 sec -69: TopDownIndexIteratorTest_Constructor type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -137: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -137: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -137: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_breadth_first_search. -137: Return code was 0. -137: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/breadth_first_search.cpp.stdout", "None". -137: Standard output was as expected. -137: Standard error was as expected. -139: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -139: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -119: test_translation_onestring_multiframe_concatdirect_parallel OK -138: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -138: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -87: test_pipe_test_simple_pool OK -136: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -136: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -136: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_bellman_ford_algorithm. -115: test_store_io_sam2 OK -140: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -140: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -72: IndexFinderTest_FindFirstChar type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -141: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -141: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK test 152 Start 152: test_demo_dox_index_getOccurrences_getFrequency_range_getFibre @@ -306956,449 +306103,12 @@ 155: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_length_countSequences" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/length_countSequences.cpp.stdout" 155: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 155: Test timeout computed to be: 10000000 -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String >, unsigned long> > > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String, seqan::Packed > > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String, seqan::Packed > > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String > > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String > > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String > > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String, seqan::Array<100ul> > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String, seqan::Block<4096ul> > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String, seqan::Alloc > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter seqan::String > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::__cxx11::basic_string, std::allocator > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::__cxx11::basic_string, std::allocator > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::vector, std::allocator > > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::vector > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::vector > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::vector > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::deque, std::allocator > > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::deque > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::deque > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::deque > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::forward_list, std::allocator > > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::forward_list > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::forward_list > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::forward_list > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::__cxx11::list, std::allocator > > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::__cxx11::list > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::__cxx11::list > OK -107: 1398 -107: 1400 -107: StringTestCommon_Front type parameter std::__cxx11::list > OK -107: StringTestCommon_GetValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String >, 4194304u, 2u> > > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String >, 4194304u, 2u> > > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String >, 4194304u, 2u> > > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String, seqan::MMap >, unsigned long> > > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String >, unsigned long> > > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String >, unsigned long> > > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String >, unsigned long> > > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String, seqan::Packed > > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String, seqan::Packed > > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String > > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String > > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String > > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String, seqan::Array<100ul> > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String, seqan::Block<4096ul> > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String, seqan::Alloc > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -107: StringTestCommon_GetValue type parameter std::__cxx11::basic_string, std::allocator > SKIPPED -107: StringTestCommon_GetValue type parameter std::__cxx11::basic_string, std::allocator > SKIPPED -107: StringTestCommon_GetValue type parameter std::vector, std::allocator > > SKIPPED -107: StringTestCommon_GetValue type parameter std::vector > SKIPPED -107: StringTestCommon_GetValue type parameter std::vector > SKIPPED -107: StringTestCommon_GetValue type parameter std::vector > SKIPPED -107: StringTestCommon_GetValue type parameter std::deque, std::allocator > > SKIPPED -107: StringTestCommon_GetValue type parameter std::deque > SKIPPED -107: StringTestCommon_GetValue type parameter std::deque > SKIPPED -107: StringTestCommon_GetValue type parameter std::deque > SKIPPED -107: StringTestCommon_GetValue type parameter std::forward_list, std::allocator > > SKIPPED -107: StringTestCommon_GetValue type parameter std::forward_list > SKIPPED -107: StringTestCommon_GetValue type parameter std::forward_list > SKIPPED -107: StringTestCommon_GetValue type parameter std::forward_list > SKIPPED -107: StringTestCommon_GetValue type parameter std::__cxx11::list, std::allocator > > SKIPPED -107: StringTestCommon_GetValue type parameter std::__cxx11::list > SKIPPED -107: StringTestCommon_GetValue type parameter std::__cxx11::list > SKIPPED -107: StringTestCommon_GetValue type parameter std::__cxx11::list > SKIPPED -107: StringTestCommon_Insert type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_Insert type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Insert type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Insert type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Insert type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_Insert type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Insert type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Insert type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Insert type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Insert type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Insert type parameter seqan::String > > OK -107: StringTestCommon_Insert type parameter seqan::String > > OK -107: StringTestCommon_Insert type parameter seqan::String > > OK -107: StringTestCommon_Insert type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_Insert type parameter seqan::String > OK -107: StringTestCommon_Insert type parameter seqan::String > OK -107: StringTestCommon_Insert type parameter seqan::String > OK -107: StringTestCommon_Insert type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_Insert type parameter seqan::String > OK -107: StringTestCommon_Insert type parameter seqan::String > OK -107: StringTestCommon_Insert type parameter seqan::String > OK -107: StringTestCommon_Insert type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_Insert type parameter seqan::String > OK -107: StringTestCommon_Insert type parameter seqan::String > OK -107: StringTestCommon_Insert type parameter seqan::String > OK -107: StringTestCommon_Insert type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Insert type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Insert type parameter std::vector, std::allocator > > OK -107: StringTestCommon_Insert type parameter std::vector > OK -107: StringTestCommon_Insert type parameter std::vector > OK -107: StringTestCommon_Insert type parameter std::vector > OK -107: StringTestCommon_Insert type parameter std::deque, std::allocator > > OK -107: StringTestCommon_Insert type parameter std::deque > OK -107: StringTestCommon_Insert type parameter std::deque > OK -107: StringTestCommon_Insert type parameter std::deque > OK -107: StringTestCommon_Insert type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_Insert type parameter std::forward_list > OK -107: StringTestCommon_Insert type parameter std::forward_list > OK -107: StringTestCommon_Insert type parameter std::forward_list > OK -107: StringTestCommon_Insert type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_Insert type parameter std::__cxx11::list > OK -107: StringTestCommon_Insert type parameter std::__cxx11::list > OK -107: StringTestCommon_Insert type parameter std::__cxx11::list > OK -107: StringTestCommon_InsertValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_InsertValue type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_InsertValue type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_InsertValue type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_InsertValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_InsertValue type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_InsertValue type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_InsertValue type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_InsertValue type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_InsertValue type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_InsertValue type parameter seqan::String > > OK -107: StringTestCommon_InsertValue type parameter seqan::String > > OK -107: StringTestCommon_InsertValue type parameter seqan::String > > OK -107: StringTestCommon_InsertValue type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_InsertValue type parameter seqan::String > OK -107: StringTestCommon_InsertValue type parameter seqan::String > OK -107: StringTestCommon_InsertValue type parameter seqan::String > OK -107: StringTestCommon_InsertValue type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_InsertValue type parameter seqan::String > OK -107: StringTestCommon_InsertValue type parameter seqan::String > OK -107: StringTestCommon_InsertValue type parameter seqan::String > OK -107: StringTestCommon_InsertValue type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_InsertValue type parameter seqan::String > OK -107: StringTestCommon_InsertValue type parameter seqan::String > OK -107: StringTestCommon_InsertValue type parameter seqan::String > OK -107: StringTestCommon_InsertValue type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_InsertValue type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_InsertValue type parameter std::vector, std::allocator > > OK -107: StringTestCommon_InsertValue type parameter std::vector > OK -107: StringTestCommon_InsertValue type parameter std::vector > OK -107: StringTestCommon_InsertValue type parameter std::vector > OK -107: StringTestCommon_InsertValue type parameter std::deque, std::allocator > > OK -107: StringTestCommon_InsertValue type parameter std::deque > OK -107: StringTestCommon_InsertValue type parameter std::deque > OK -107: StringTestCommon_InsertValue type parameter std::deque > OK -107: StringTestCommon_InsertValue type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_InsertValue type parameter std::forward_list > OK -107: StringTestCommon_InsertValue type parameter std::forward_list > OK -107: StringTestCommon_InsertValue type parameter std::forward_list > OK -107: StringTestCommon_InsertValue type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_InsertValue type parameter std::__cxx11::list > OK -107: StringTestCommon_InsertValue type parameter std::__cxx11::list > OK -107: StringTestCommon_InsertValue type parameter std::__cxx11::list > OK -107: StringTestCommon_Iter type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_Iter type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Iter type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Iter type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Iter type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_Iter type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Iter type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Iter type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Iter type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Iter type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Iter type parameter seqan::String > > OK -107: StringTestCommon_Iter type parameter seqan::String > > OK -107: StringTestCommon_Iter type parameter seqan::String > > OK -107: StringTestCommon_Iter type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_Iter type parameter seqan::String > OK -107: StringTestCommon_Iter type parameter seqan::String > OK -107: StringTestCommon_Iter type parameter seqan::String > OK -107: StringTestCommon_Iter type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_Iter type parameter seqan::String > OK -107: StringTestCommon_Iter type parameter seqan::String > OK -107: StringTestCommon_Iter type parameter seqan::String > OK -107: StringTestCommon_Iter type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_Iter type parameter seqan::String > OK -107: StringTestCommon_Iter type parameter seqan::String > OK -107: StringTestCommon_Iter type parameter seqan::String > OK -107: StringTestCommon_Iter type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Iter type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Iter type parameter std::vector, std::allocator > > OK -107: StringTestCommon_Iter type parameter std::vector > OK -107: StringTestCommon_Iter type parameter std::vector > OK -107: StringTestCommon_Iter type parameter std::vector > OK -107: StringTestCommon_Iter type parameter std::deque, std::allocator > > OK -107: StringTestCommon_Iter type parameter std::deque > OK -107: StringTestCommon_Iter type parameter std::deque > OK -107: StringTestCommon_Iter type parameter std::deque > OK -107: StringTestCommon_Iter type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_Iter type parameter std::forward_list > OK -107: StringTestCommon_Iter type parameter std::forward_list > OK -107: StringTestCommon_Iter type parameter std::forward_list > OK -107: StringTestCommon_Iter type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_Iter type parameter std::__cxx11::list > OK -107: StringTestCommon_Iter type parameter std::__cxx11::list > OK -107: StringTestCommon_Iter type parameter std::__cxx11::list > OK -107: StringTestCommon_Length type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_Length type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Length type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Length type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Length type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_Length type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Length type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Length type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Length type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Length type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Length type parameter seqan::String > > OK -107: StringTestCommon_Length type parameter seqan::String > > OK -107: StringTestCommon_Length type parameter seqan::String > > OK -107: StringTestCommon_Length type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_Length type parameter seqan::String > OK -107: StringTestCommon_Length type parameter seqan::String > OK -107: StringTestCommon_Length type parameter seqan::String > OK -107: StringTestCommon_Length type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_Length type parameter seqan::String > OK -107: StringTestCommon_Length type parameter seqan::String > OK -107: StringTestCommon_Length type parameter seqan::String > OK -107: StringTestCommon_Length type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_Length type parameter seqan::String > OK -107: StringTestCommon_Length type parameter seqan::String > OK -107: StringTestCommon_Length type parameter seqan::String > OK -107: StringTestCommon_Length type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Length type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Length type parameter std::vector, std::allocator > > OK -107: StringTestCommon_Length type parameter std::vector > OK -107: StringTestCommon_Length type parameter std::vector > OK -107: StringTestCommon_Length type parameter std::vector > OK -107: StringTestCommon_Length type parameter std::deque, std::allocator > > OK -107: StringTestCommon_Length type parameter std::deque > OK -107: StringTestCommon_Length type parameter std::deque > OK -107: StringTestCommon_Length type parameter std::deque > OK -107: StringTestCommon_Length type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_Length type parameter std::forward_list > OK -107: StringTestCommon_Length type parameter std::forward_list > OK -107: StringTestCommon_Length type parameter std::forward_list > OK -107: StringTestCommon_Length type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_Length type parameter std::__cxx11::list > OK -107: StringTestCommon_Length type parameter std::__cxx11::list > OK -107: StringTestCommon_Length type parameter std::__cxx11::list > OK -107: StringTestCommon_MoveValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_MoveValue type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_MoveValue type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_MoveValue type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_MoveValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_MoveValue type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_MoveValue type parameter seqan::String >, unsigned long> > > OK -127: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_integrate_align. -127: Return code was 0. -127: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/integrate_align.cpp.stdout", "None". -127: Standard output was as expected. -127: Standard error was as expected. -144: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -144: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -144: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_prims_algorithm. -144: Return code was 0. -144: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/prims_algorithm.cpp.stdout", "None". -144: Standard output was as expected. -144: Standard error was as expected. -114/415 Test #133: test_demo_dox_find_finder_index ................................................... Passed 0.16 sec test 156 Start 156: test_demo_dox_index_mummy 156: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_mummy" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/mummy.cpp.stdout" 156: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 156: Test timeout computed to be: 10000000 -107: StringTestCommon_MoveValue type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_MoveValue type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_MoveValue type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_MoveValue type parameter seqan::String > > OK -107: StringTestCommon_MoveValue type parameter seqan::String > > OK -107: StringTestCommon_MoveValue type parameter seqan::String > > OK -107: StringTestCommon_MoveValue type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_MoveValue type parameter seqan::String > OK -107: StringTestCommon_MoveValue type parameter seqan::String > OK -107: StringTestCommon_MoveValue type parameter seqan::String > OK -107: StringTestCommon_MoveValue type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_MoveValue type parameter seqan::String > OK -107: StringTestCommon_MoveValue type parameter seqan::String > OK -107: StringTestCommon_MoveValue type parameter seqan::String > OK -107: StringTestCommon_MoveValue type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_MoveValue type parameter seqan::String > OK -107: StringTestCommon_MoveValue type parameter seqan::String > OK -107: StringTestCommon_MoveValue type parameter seqan::String > OK -107: StringTestCommon_MoveValue type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_MoveValue type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_MoveValue type parameter std::vector, std::allocator > > OK -107: StringTestCommon_MoveValue type parameter std::vector > OK -107: StringTestCommon_MoveValue type parameter std::vector > OK -107: StringTestCommon_MoveValue type parameter std::vector > OK -107: StringTestCommon_MoveValue type parameter std::deque, std::allocator > > OK -107: StringTestCommon_MoveValue type parameter std::deque > OK -107: StringTestCommon_MoveValue type parameter std::deque > OK -107: StringTestCommon_MoveValue type parameter std::deque > OK -107: StringTestCommon_MoveValue type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_MoveValue type parameter std::forward_list > OK -107: StringTestCommon_MoveValue type parameter std::forward_list > OK -107: StringTestCommon_MoveValue type parameter std::forward_list > OK -107: StringTestCommon_MoveValue type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_MoveValue type parameter std::__cxx11::list > OK -107: StringTestCommon_MoveValue type parameter std::__cxx11::list > OK -107: StringTestCommon_MoveValue type parameter std::__cxx11::list > OK -107: StringTestCommon_Replace type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_Replace type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Replace type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Replace type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Replace type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -115/415 Test #127: test_demo_dox_align_integrate_align ............................................... Passed 0.20 sec -139: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_depth_first_search. -139: Return code was 0. -139: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/depth_first_search.cpp.stdout", "None". -139: Standard output was as expected. -139: Standard error was as expected. -116/415 Test #139: test_demo_dox_graph_algorithms_depth_first_search ................................. Passed 0.13 sec -131: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_basic_zip_iterator. -131: Return code was 0. -131: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/zip_iterator.cpp.stdout", "None". -131: Standard output was as expected. -131: Standard error was as expected. -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 1u, 0u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK -145: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -145: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -145: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_strongly_connected_components. -145: Return code was 0. -145: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/strongly_connected_components.cpp.stdout", "None". -145: Standard output was as expected. -145: Standard error was as expected. -117/415 Test #137: test_demo_dox_graph_algorithms_breadth_first_search ............................... Passed 0.14 sec -136: Return code was 0. -136: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/bellman_ford_algorithm.cpp.stdout", "None". -136: Standard output was as expected. -136: Standard error was as expected. -140: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_dijkstra. -140: Return code was 0. -140: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/dijkstra.cpp.stdout", "None". -140: Standard output was as expected. -140: Standard error was as expected. -141: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_floyd_warshall_algorithm. -141: Return code was 0. -141: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/floyd_warshall_algorithm.cpp.stdout", "None". -141: Standard output was as expected. -141: Standard error was as expected. -85: test_parallel_atomic_or OK -146: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -146: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -116: FileStreamTest_ReadLarge type parameter seqan::Async OK -118/415 Test #135: test_demo_dox_graph_algorithms_all_pairs_shortest_path ............................ Passed 0.16 sec -119/415 Test #129: test_demo_dox_align_split_split_alignment ......................................... Passed 0.19 sec -142: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -142: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -138: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_dag_shortest_path. -138: Return code was 0. -138: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/dag_shortest_path.cpp.stdout", "None". -138: Standard output was as expected. -138: Standard error was as expected. test 157 Start 157: test_demo_dox_index_open_save @@ -307429,204 +306139,6 @@ 161: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_misc_name_store_cache" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/name_store_cache.cpp.stdout" 161: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 161: Test timeout computed to be: 10000000 -107: StringTestCommon_Replace type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Replace type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Replace type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Replace type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Replace type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Replace type parameter seqan::String > > OK -107: StringTestCommon_Replace type parameter seqan::String > > OK -107: StringTestCommon_Replace type parameter seqan::String > > OK -107: StringTestCommon_Replace type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_Replace type parameter seqan::String > OK -107: StringTestCommon_Replace type parameter seqan::String > OK -107: StringTestCommon_Replace type parameter seqan::String > OK -107: StringTestCommon_Replace type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_Replace type parameter seqan::String > OK -107: StringTestCommon_Replace type parameter seqan::String > OK -107: StringTestCommon_Replace type parameter seqan::String > OK -107: StringTestCommon_Replace type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_Replace type parameter seqan::String > OK -107: StringTestCommon_Replace type parameter seqan::String > OK -107: StringTestCommon_Replace type parameter seqan::String > OK -107: StringTestCommon_Replace type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Replace type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Replace type parameter std::vector, std::allocator > > OK -107: StringTestCommon_Replace type parameter std::vector > OK -107: StringTestCommon_Replace type parameter std::vector > OK -107: StringTestCommon_Replace type parameter std::vector > OK -107: StringTestCommon_Replace type parameter std::deque, std::allocator > > OK -107: StringTestCommon_Replace type parameter std::deque > OK -107: StringTestCommon_Replace type parameter std::deque > OK -107: StringTestCommon_Replace type parameter std::deque > OK -107: StringTestCommon_Replace type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_Replace type parameter std::forward_list > OK -107: StringTestCommon_Replace type parameter std::forward_list > OK -107: StringTestCommon_Replace type parameter std::forward_list > OK -107: StringTestCommon_Replace type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_Replace type parameter std::__cxx11::list > OK -107: StringTestCommon_Replace type parameter std::__cxx11::list > OK -107: StringTestCommon_Replace type parameter std::__cxx11::list > OK -107: StringTestCommon_Reserve type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_Reserve type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Reserve type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Reserve type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Reserve type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_Reserve type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Reserve type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Reserve type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Reserve type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Reserve type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Reserve type parameter seqan::String > > OK -107: StringTestCommon_Reserve type parameter seqan::String > > OK -107: StringTestCommon_Reserve type parameter seqan::String > > OK -107: StringTestCommon_Reserve type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_Reserve type parameter seqan::String > OK -107: StringTestCommon_Reserve type parameter seqan::String > OK -107: StringTestCommon_Reserve type parameter seqan::String > OK -107: StringTestCommon_Reserve type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_Reserve type parameter seqan::String > OK -107: StringTestCommon_Reserve type parameter seqan::String > OK -107: StringTestCommon_Reserve type parameter seqan::String > OK -107: StringTestCommon_Reserve type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_Reserve type parameter seqan::String > OK -107: StringTestCommon_Reserve type parameter seqan::String > OK -107: StringTestCommon_Reserve type parameter seqan::String > OK -107: StringTestCommon_Reserve type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Reserve type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Reserve type parameter std::vector, std::allocator > > OK -107: StringTestCommon_Reserve type parameter std::vector > OK -107: StringTestCommon_Reserve type parameter std::vector > OK -107: StringTestCommon_Reserve type parameter std::vector > OK -107: StringTestCommon_Reserve type parameter std::deque, std::allocator > > OK -107: StringTestCommon_Reserve type parameter std::deque > OK -107: StringTestCommon_Reserve type parameter std::deque > OK -107: StringTestCommon_Reserve type parameter std::deque > OK -107: StringTestCommon_Reserve type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_Reserve type parameter std::forward_list > OK -107: StringTestCommon_Reserve type parameter std::forward_list > OK -107: StringTestCommon_Reserve type parameter std::forward_list > OK -107: StringTestCommon_Reserve type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_Reserve type parameter std::__cxx11::list > OK -107: StringTestCommon_Reserve type parameter std::__cxx11::list > OK -107: StringTestCommon_Reserve type parameter std::__cxx11::list > OK -107: StringTestCommon_Resize type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_Resize type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Resize type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Resize type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Resize type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_Resize type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Resize type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Resize type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Resize type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Resize type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Resize type parameter seqan::String > > OK -107: StringTestCommon_Resize type parameter seqan::String > > OK -107: StringTestCommon_Resize type parameter seqan::String > > OK -107: StringTestCommon_Resize type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_Resize type parameter seqan::String > OK -107: StringTestCommon_Resize type parameter seqan::String > OK -107: StringTestCommon_Resize type parameter seqan::String > OK -107: StringTestCommon_Resize type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_Resize type parameter seqan::String > OK -107: StringTestCommon_Resize type parameter seqan::String > OK -107: StringTestCommon_Resize type parameter seqan::String > OK -107: StringTestCommon_Resize type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_Resize type parameter seqan::String > OK -107: StringTestCommon_Resize type parameter seqan::String > OK -107: StringTestCommon_Resize type parameter seqan::String > OK -107: StringTestCommon_Resize type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Resize type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Resize type parameter std::vector, std::allocator > > OK -107: StringTestCommon_Resize type parameter std::vector > OK -107: StringTestCommon_Resize type parameter std::vector > OK -107: StringTestCommon_Resize type parameter std::vector > OK -107: StringTestCommon_Resize type parameter std::deque, std::allocator > > OK -107: StringTestCommon_Resize type parameter std::deque > OK -107: StringTestCommon_Resize type parameter std::deque > OK -107: StringTestCommon_Resize type parameter std::deque > OK -107: StringTestCommon_Resize type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_Resize type parameter std::forward_list > OK -107: StringTestCommon_Resize type parameter std::forward_list > OK -107: StringTestCommon_Resize type parameter std::forward_list > OK -107: StringTestCommon_Resize type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_Resize type parameter std::__cxx11::list > OK -107: StringTestCommon_Resize type parameter std::__cxx11::list > OK -107: StringTestCommon_Resize type parameter std::__cxx11::list > OK -107: StringTestCommon_Value type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -107: StringTestCommon_Value type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Value type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Value type parameter seqan::String >, 4194304u, 2u> > > OK -107: StringTestCommon_Value type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -107: StringTestCommon_Value type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Value type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Value type parameter seqan::String >, unsigned long> > > OK -107: StringTestCommon_Value type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Value type parameter seqan::String, seqan::Packed > > OK -107: StringTestCommon_Value type parameter seqan::String > > OK -107: StringTestCommon_Value type parameter seqan::String > > OK -107: StringTestCommon_Value type parameter seqan::String > > OK -107: StringTestCommon_Value type parameter seqan::String, seqan::Array<100ul> > OK -107: StringTestCommon_Value type parameter seqan::String > OK -107: StringTestCommon_Value type parameter seqan::String > OK -107: StringTestCommon_Value type parameter seqan::String > OK -107: StringTestCommon_Value type parameter seqan::String, seqan::Block<4096ul> > OK -107: StringTestCommon_Value type parameter seqan::String > OK -107: StringTestCommon_Value type parameter seqan::String > OK -107: StringTestCommon_Value type parameter seqan::String > OK -107: StringTestCommon_Value type parameter seqan::String, seqan::Alloc > OK -107: StringTestCommon_Value type parameter seqan::String > OK -107: StringTestCommon_Value type parameter seqan::String > OK -107: StringTestCommon_Value type parameter seqan::String > OK -107: StringTestCommon_Value type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Value type parameter std::__cxx11::basic_string, std::allocator > OK -107: StringTestCommon_Value type parameter std::vector, std::allocator > > OK -107: StringTestCommon_Value type parameter std::vector > OK -107: StringTestCommon_Value type parameter std::vector > OK -107: StringTestCommon_Value type parameter std::vector > OK -107: StringTestCommon_Value type parameter std::deque, std::allocator > > OK -107: StringTestCommon_Value type parameter std::deque > OK -107: StringTestCommon_Value type parameter std::deque > OK -107: StringTestCommon_Value type parameter std::deque > OK -107: StringTestCommon_Value type parameter std::forward_list, std::allocator > > OK -107: StringTestCommon_Value type parameter std::forward_list > OK -107: StringTestCommon_Value type parameter std::forward_list > OK -107: StringTestCommon_Value type parameter std::forward_list > OK -107: StringTestCommon_Value type parameter std::__cxx11::list, std::allocator > > OK -107: StringTestCommon_Value type parameter std::__cxx11::list > OK -107: StringTestCommon_Value type parameter std::__cxx11::list > OK -107: StringTestCommon_Value type parameter std::__cxx11::list > OK -107: ************************************** -107: Total Tests: 1505 -107: Skipped: 43 -107: Errors: 0 -107: ************************************** -147: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -147: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -147: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_transitive_closure. -147: Return code was 0. -147: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/transitive_closure.cpp.stdout", "None". -147: Standard output was as expected. -147: Standard error was as expected. -132: Return code was 0. -132: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/consensus/consensus_alignment.cpp.stdout", "None". -132: Standard output was as expected. -132: Standard error was as expected. -149: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -149: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -149: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_begin_atEnd_representative. -149: Return code was 0. -149: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_atEnd_representative.cpp.stdout", "None". -149: Standard output was as expected. -149: Standard error was as expected. -148: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -148: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -143: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -143: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -120/415 Test #131: test_demo_dox_basic_zip_iterator .................................................. Passed 0.21 sec -121/415 Test #136: test_demo_dox_graph_algorithms_bellman_ford_algorithm ............................. Passed 0.18 sec -122/415 Test #141: test_demo_dox_graph_algorithms_floyd_warshall_algorithm ........................... Passed 0.15 sec -123/415 Test #144: test_demo_dox_graph_algorithms_prims_algorithm .................................... Passed 0.12 sec test 162 Start 162: test_demo_dox_modifier_cyclic_shape @@ -307651,25 +306163,149 @@ 165: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string_nested" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_nested.cpp.stdout" 165: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 165: Test timeout computed to be: 10000000 -124/415 Test #107: test_test_sequence_v2 ............................................................. Passed 0.39 sec -125/415 Test #147: test_demo_dox_graph_algorithms_transitive_closure ................................. Passed 0.13 sec -126/415 Test #132: test_demo_dox_consensus_consensus_alignment ....................................... Passed 0.23 sec -151: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -151: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -151: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_finder. -151: Return code was 0. -151: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/finder.cpp.stdout", "None". -151: Standard output was as expected. -151: Standard error was as expected. -127/415 Test #140: test_demo_dox_graph_algorithms_dijkstra ........................................... Passed 0.19 sec +85: threads: 2 +85: writers: 1 +85: stop reader #1 100000 +85: throughput: 1429765 values/s +85: cap: 30 +85: test_parallel_queue_spsc_fixedsize OK +85: threads: 2 +85: writers: 1 +85: stop reader #1 100000 +85: throughput: 5165226 values/s +85: cap: 114498 +85: test_parallel_queue_spsc_dynamicsize OK +85: threads: 4 +85: writers: 1 +85: stop reader #3 33457 +85: stop reader #2 31187 +85: stop reader #1 35356 +85: throughput: 975121 values/s +85: cap: 30 +85: test_parallel_queue_spmc_fixedsize OK +85: threads: 4 +85: writers: 1 +85: stop reader #1 67100 +85: stop reader #3 7176 +85: stop reader #2 25724 +85: throughput: 5178215 values/s +85: cap: 33923 +85: test_parallel_queue_spmc_dynamicsize OK +85: threads: 3 +85: writers: 2 +85: stop reader #2 100000 +85: throughput: 2009742 values/s +85: cap: 30 +85: test_parallel_queue_mpsc_fixedsize OK +85: test_parallel_thread_pool_construct OK +85: test_parallel_thread_pool_spawn OK +119: test_translation_stringset_multiframe_parallel OK +119: test_translation_stringset_multiframe_concatdirect_parallel OK +119: ************************************** +119: Total Tests: 10 +119: Skipped: 0 +119: Errors: 0 +119: ************************************** +126/415 Test #119: test_translation .................................................................. Passed 0.63 sec +127/415 Test #122: test_demo_dox_align_align ......................................................... Passed 0.76 sec +105: test_stream_read_genbank_single_mmap OK +124: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +124: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +124: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_gaps_example. +124: Return code was 0. +124: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/gaps_example.cpp.stdout", "None". +124: Standard output was as expected. +124: Standard error was as expected. +67: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +67: LFTest_IsSentinel type parameter seqan::Index >, seqan::FMIndex > > OK +67: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +67: LFTest_IsSentinel type parameter seqan::Index >, seqan::FMIndex > > OK +67: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +67: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +67: CSATest_IndexSA type parameter seqan::Index >, seqan::FMIndex > > OK +66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +66: IndexTest_ClearEmpty type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +115: test_store_io_sam OK +115: test_store_io_sam2 OK +142: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +142: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +142: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_ford_fulkerson_algorithm. +142: Return code was 0. +142: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.stdout", "None". +142: Standard output was as expected. +142: Standard error was as expected. +143: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +143: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +143: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_kruskals_algorithm. +143: Return code was 0. +143: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/kruskals_algorithm.cpp.stdout", "None". +143: Standard output was as expected. +143: Standard error was as expected. +144: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +144: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +144: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_prims_algorithm. +144: Return code was 0. +144: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/prims_algorithm.cpp.stdout", "None". +144: Standard output was as expected. +144: Standard error was as expected. +test 166 + Start 166: test_demo_dox_parallel_queue_example + +166: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_parallel_queue_example" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/queue_example.cpp.stdout" +166: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +166: Test timeout computed to be: 10000000 +test 167 + Start 167: test_demo_dox_parallel_splitter_example + +167: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_parallel_splitter_example" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/splitter_example.cpp.stdout" +167: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +167: Test timeout computed to be: 10000000 +116: FileStreamTest_ReadLarge type parameter seqan::Async OK +87: test_pipe_test_external_string OK +87: test_pipe_test_simple_pool OK +87: test_pipe_test_mapper OK +87: test_pipe_test_mapper_partially_filled OK +69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +69: ************************************** +69: Total Tests: 14 +69: Skipped: 0 +69: Errors: 0 +69: ************************************** +145: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +145: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +145: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_strongly_connected_components. +145: Return code was 0. +145: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/strongly_connected_components.cpp.stdout", "None". +145: Standard output was as expected. +145: Standard error was as expected. +146: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +146: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 146: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_topological_sort. 146: Return code was 0. 146: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/topological_sort.cpp.stdout", "None". 146: Standard output was as expected. 146: Standard error was as expected. -128/415 Test #146: test_demo_dox_graph_algorithms_topological_sort ................................... Passed 0.13 sec -129/415 Test #138: test_demo_dox_graph_algorithms_dag_shortest_path .................................. Passed 0.19 sec -130/415 Test #145: test_demo_dox_graph_algorithms_strongly_connected_components ...................... Passed 0.14 sec +147: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +147: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +147: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_transitive_closure. +147: Return code was 0. +147: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/transitive_closure.cpp.stdout", "None". +147: Standard output was as expected. +147: Standard error was as expected. +148: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +148: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +148: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_types_graph_algo_dijkstra. +148: Return code was 0. +148: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_types/graph_algo_dijkstra.cpp.stdout", "None". +148: Standard output was as expected. +148: Standard error was as expected. +149: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +149: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +149: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_begin_atEnd_representative. +149: Return code was 0. +149: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_atEnd_representative.cpp.stdout", "None". +149: Standard output was as expected. +149: Standard error was as expected. 150: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 150: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 150: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_counting. @@ -307677,6 +306313,20 @@ 150: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/counting.cpp.stdout", "None". 150: Standard output was as expected. 150: Standard error was as expected. +151: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +151: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +151: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_finder. +151: Return code was 0. +151: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/finder.cpp.stdout", "None". +151: Standard output was as expected. +151: Standard error was as expected. +152: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +152: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +152: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_getOccurrences_getFrequency_range_getFibre. +152: Return code was 0. +152: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/getOccurrences_getFrequency_range_getFibre.cpp.stdout", "None". +152: Standard output was as expected. +152: Standard error was as expected. 153: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 153: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 153: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_iterator. @@ -307684,30 +306334,112 @@ 153: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/iterator.cpp.stdout", "None". 153: Standard output was as expected. 153: Standard error was as expected. -142: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_ford_fulkerson_algorithm. -142: Return code was 0. -142: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.stdout", "None". -142: Standard output was as expected. -142: Standard error was as expected. -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: ************************************** -64: Total Tests: 239 -64: Skipped: 0 -64: Errors: 0 -64: ************************************** -131/415 Test #64: test_test_index_fm_rank_dictionary ................................................ Passed 0.65 sec -test 166 - Start 166: test_demo_dox_parallel_queue_example - -166: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_parallel_queue_example" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/queue_example.cpp.stdout" -166: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -166: Test timeout computed to be: 10000000 -test 167 - Start 167: test_demo_dox_parallel_splitter_example - -167: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_parallel_splitter_example" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/splitter_example.cpp.stdout" -167: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -167: Test timeout computed to be: 10000000 +154: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +154: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +154: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_iterator_short. +154: Return code was 0. +154: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/iterator_short.cpp.stdout", "None". +154: Standard output was as expected. +154: Standard error was as expected. +155: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +155: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +155: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_length_countSequences. +155: Return code was 0. +155: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/length_countSequences.cpp.stdout", "None". +155: Standard output was as expected. +155: Standard error was as expected. +156: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +156: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +156: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_mummy. +156: Return code was 0. +156: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/mummy.cpp.stdout", "None". +156: Standard output was as expected. +156: Standard error was as expected. +157: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +157: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +157: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_open_save. +157: Return code was 0. +157: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/open_save.cpp.stdout", "None". +157: Standard output was as expected. +157: Standard error was as expected. +158: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +158: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +158: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_sufarray. +158: Return code was 0. +158: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/sufarray.cpp.stdout", "None". +158: Standard output was as expected. +158: Standard error was as expected. +159: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +159: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +159: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_textAt_indexText_saAt_indexRequire. +159: Return code was 0. +159: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/textAt_indexText_saAt_indexRequire.cpp.stdout", "None". +159: Standard output was as expected. +159: Standard error was as expected. +160: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +160: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +160: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_misc_enumerate_strings. +160: Return code was 0. +160: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/enumerate_strings.cpp.stdout", "None". +160: Standard output was as expected. +160: Standard error was as expected. +161: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +161: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +161: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_misc_name_store_cache. +161: Return code was 0. +161: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/name_store_cache.cpp.stdout", "None". +161: Standard output was as expected. +161: Standard error was as expected. +162: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +162: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +162: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_cyclic_shape. +162: Return code was 0. +162: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/cyclic_shape.cpp.stdout", "None". +162: Standard output was as expected. +162: Standard error was as expected. +163: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +163: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +163: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string. +163: Return code was 0. +163: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string.cpp.stdout", "None". +163: Standard output was as expected. +163: Standard error was as expected. +164: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +164: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +164: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string_mod_view. +164: Return code was 0. +164: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_mod_view.cpp.stdout", "None". +164: Standard output was as expected. +164: Standard error was as expected. +165: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +165: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +165: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string_nested. +165: Return code was 0. +165: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_nested.cpp.stdout", "None". +165: Standard output was as expected. +165: Standard error was as expected. +128/415 Test #69: test_test_index_vstree ............................................................ Passed 1.66 sec +129/415 Test #124: test_demo_dox_align_gaps_example .................................................. Passed 1.10 sec +130/415 Test #142: test_demo_dox_graph_algorithms_ford_fulkerson_algorithm ........................... Passed 0.84 sec +131/415 Test #143: test_demo_dox_graph_algorithms_kruskals_algorithm ................................. Passed 0.84 sec +132/415 Test #144: test_demo_dox_graph_algorithms_prims_algorithm .................................... Passed 0.84 sec +133/415 Test #147: test_demo_dox_graph_algorithms_transitive_closure ................................. Passed 0.60 sec +134/415 Test #148: test_demo_dox_graph_types_graph_algo_dijkstra ..................................... Passed 0.59 sec +135/415 Test #149: test_demo_dox_index_begin_atEnd_representative .................................... Passed 0.59 sec +136/415 Test #150: test_demo_dox_index_counting ...................................................... Passed 0.59 sec +137/415 Test #151: test_demo_dox_index_finder ........................................................ Passed 0.58 sec +138/415 Test #152: test_demo_dox_index_getOccurrences_getFrequency_range_getFibre .................... Passed 0.58 sec +139/415 Test #153: test_demo_dox_index_iterator ...................................................... Passed 0.56 sec +140/415 Test #154: test_demo_dox_index_iterator_short ................................................ Passed 0.56 sec +141/415 Test #155: test_demo_dox_index_length_countSequences ......................................... Passed 0.55 sec +142/415 Test #158: test_demo_dox_index_sufarray ...................................................... Passed 0.54 sec +143/415 Test #159: test_demo_dox_index_textAt_indexText_saAt_indexRequire ............................ Passed 0.54 sec +144/415 Test #160: test_demo_dox_misc_enumerate_strings .............................................. Passed 0.54 sec +145/415 Test #161: test_demo_dox_misc_name_store_cache ............................................... Passed 0.53 sec +146/415 Test #162: test_demo_dox_modifier_cyclic_shape ............................................... Passed 0.53 sec +147/415 Test #163: test_demo_dox_modifier_modified_string ............................................ Passed 0.52 sec +148/415 Test #164: test_demo_dox_modifier_modified_string_mod_view ................................... Passed 0.52 sec +149/415 Test #165: test_demo_dox_modifier_modified_string_nested ..................................... Passed 0.51 sec test 168 Start 168: test_demo_dox_score_score @@ -307744,43 +306476,6 @@ 173: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_string2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/string2.cpp.stdout" 173: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 173: Test timeout computed to be: 10000000 -132/415 Test #151: test_demo_dox_index_finder ........................................................ Passed 0.16 sec -133/415 Test #153: test_demo_dox_index_iterator ...................................................... Passed 0.15 sec -134/415 Test #142: test_demo_dox_graph_algorithms_ford_fulkerson_algorithm ........................... Passed 0.23 sec -148: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_types_graph_algo_dijkstra. -148: Return code was 0. -148: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_types/graph_algo_dijkstra.cpp.stdout", "None". -148: Standard output was as expected. -148: Standard error was as expected. -135/415 Test #148: test_demo_dox_graph_types_graph_algo_dijkstra ..................................... Passed 0.18 sec -136/415 Test #149: test_demo_dox_index_begin_atEnd_representative .................................... Passed 0.17 sec -143: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_kruskals_algorithm. -143: Return code was 0. -143: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/kruskals_algorithm.cpp.stdout", "None". -143: Standard output was as expected. -143: Standard error was as expected. -154: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -154: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -154: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_iterator_short. -154: Return code was 0. -154: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/iterator_short.cpp.stdout", "None". -154: Standard output was as expected. -154: Standard error was as expected. -67: LFTest_IsSentinel type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -159: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -159: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -159: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_textAt_indexText_saAt_indexRequire. -159: Return code was 0. -159: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/textAt_indexText_saAt_indexRequire.cpp.stdout", "None". -159: Standard output was as expected. -159: Standard error was as expected. -157: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -157: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -157: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_open_save. -157: Return code was 0. -157: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/open_save.cpp.stdout", "None". -157: Standard output was as expected. -157: Standard error was as expected. test 174 Start 174: test_demo_dox_sequence_stringset @@ -307811,51 +306506,6 @@ 178: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_filter_similar_sequences" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/filter_similar_sequences.cpp.stdout" "--stderr-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/filter_similar_sequences.cpp.stderr" 178: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 178: Test timeout computed to be: 10000000 -115: test_store_io_split_sam OK -161: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -161: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -161: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_misc_name_store_cache. -161: Return code was 0. -161: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/name_store_cache.cpp.stdout", "None". -161: Standard output was as expected. -161: Standard error was as expected. -158: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -158: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -163: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -163: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -163: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string. -163: Return code was 0. -163: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string.cpp.stdout", "None". -163: Standard output was as expected. -163: Standard error was as expected. -152: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -152: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -152: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_getOccurrences_getFrequency_range_getFibre. -155: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -155: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -155: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_length_countSequences. -155: Return code was 0. -155: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/length_countSequences.cpp.stdout", "None". -155: Standard output was as expected. -155: Standard error was as expected. -156: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -156: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -164: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -164: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -164: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string_mod_view. -164: Return code was 0. -164: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_mod_view.cpp.stdout", "None". -164: Standard output was as expected. -164: Standard error was as expected. -160: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -160: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -160: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_misc_enumerate_strings. -137/415 Test #143: test_demo_dox_graph_algorithms_kruskals_algorithm ................................. Passed 0.24 sec -138/415 Test #150: test_demo_dox_index_counting ...................................................... Passed 0.19 sec -139/415 Test #154: test_demo_dox_index_iterator_short ................................................ Passed 0.16 sec -140/415 Test #159: test_demo_dox_index_textAt_indexText_saAt_indexRequire ............................ Passed 0.12 sec -141/415 Test #161: test_demo_dox_misc_name_store_cache ............................................... Passed 0.12 sec -142/415 Test #163: test_demo_dox_modifier_modified_string ............................................ Passed 0.09 sec test 179 Start 179: test_demo_howto_scores_init_score @@ -307892,38 +306542,6 @@ 184: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_final_result" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/final_result.cpp.stdout" 184: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 184: Test timeout computed to be: 10000000 -143/415 Test #164: test_demo_dox_modifier_modified_string_mod_view ................................... Passed 0.13 sec -167: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -167: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -167: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_parallel_splitter_example. -167: Return code was 0. -167: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/splitter_example.cpp.stdout", "None". -167: Standard output was as expected. -167: Standard error was as expected. -162: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -162: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -162: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_cyclic_shape. -162: Return code was 0. -162: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/cyclic_shape.cpp.stdout", "None". -162: Standard output was as expected. -162: Standard error was as expected. -165: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -165: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -165: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string_nested. -165: Return code was 0. -165: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_nested.cpp.stdout", "None". -165: Standard output was as expected. -165: Standard error was as expected. -144/415 Test #157: test_demo_dox_index_open_save ..................................................... Passed 0.18 sec -169: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -169: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -169: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_seeds_seeds_chaining. -169: Return code was 0. -169: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_chaining.cpp.stdout", "None". -169: Standard output was as expected. -169: Standard error was as expected. -166: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -166: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") test 185 Start 185: test_demo_tutorial_a_first_example_solution_1 @@ -307936,46 +306554,6 @@ 186: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_2.cpp.stdout" 186: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 186: Test timeout computed to be: 10000000 -152: Return code was 0. -152: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/getOccurrences_getFrequency_range_getFibre.cpp.stdout", "None". -152: Standard output was as expected. -152: Standard error was as expected. -156: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_mummy. -156: Return code was 0. -156: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/mummy.cpp.stdout", "None". -156: Standard output was as expected. -156: Standard error was as expected. -160: Return code was 0. -160: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/enumerate_strings.cpp.stdout", "None". -160: Standard output was as expected. -160: Standard error was as expected. -158: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_sufarray. -158: Return code was 0. -158: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/sufarray.cpp.stdout", "None". -158: Standard output was as expected. -158: Standard error was as expected. -171: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -171: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -170: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -170: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -168: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -168: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -174: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -174: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -173: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -173: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -173: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_string2. -85: test_parallel_atomic_xor OK -176: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -176: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -145/415 Test #152: test_demo_dox_index_getOccurrences_getFrequency_range_getFibre .................... Passed 0.23 sec -146/415 Test #155: test_demo_dox_index_length_countSequences ......................................... Passed 0.21 sec -147/415 Test #156: test_demo_dox_index_mummy ......................................................... Passed 0.20 sec -148/415 Test #160: test_demo_dox_misc_enumerate_strings .............................................. Passed 0.17 sec -149/415 Test #162: test_demo_dox_modifier_cyclic_shape ............................................... Passed 0.15 sec -150/415 Test #165: test_demo_dox_modifier_modified_string_nested ..................................... Passed 0.14 sec -151/415 Test #167: test_demo_dox_parallel_splitter_example ........................................... Passed 0.13 sec -152/415 Test #169: test_demo_dox_seeds_seeds_chaining ................................................ Passed 0.11 sec test 187 Start 187: test_demo_tutorial_a_first_example_solution_3 @@ -307994,6 +306572,39 @@ 189: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_5" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_5.cpp.stdout" 189: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 189: Test timeout computed to be: 10000000 +150/415 Test #145: test_demo_dox_graph_algorithms_strongly_connected_components ...................... Passed 0.70 sec +151/415 Test #146: test_demo_dox_graph_algorithms_topological_sort ................................... Passed 0.70 sec +152/415 Test #157: test_demo_dox_index_open_save ..................................................... Passed 0.64 sec +105: test_stream_read_genbank_single_batch_mmap OK +105: test_seq_io_bam_file_sam_read_sequences OK +105: test_seq_io_bam_file_sam_read_sequences_and_qualities OK +105: test_seq_io_bam_file_sam_write_sequences OK +105: test_seq_io_bam_file_sam_write_sequences_and_qualities OK +105: test_seq_io_bam_file_bam_read_sequences OK +105: test_seq_io_bam_file_bam_read_sequences_and_qualities OK +105: test_seq_io_bam_file_bam_write_sequences OK +105: test_seq_io_bam_file_bam_write_sequences_and_qualities OK +105: ************************************** +105: Total Tests: 44 +105: Skipped: 0 +105: Errors: 0 +105: ************************************** +107: StringTestCommon_CopyConstructible type parameter seqan::String >, unsigned long> > > OK +66: IndexTest_OpenSave type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +66: IndexTest_OpenSave type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +66: IndexTest_OpenSave type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +66: IndexTest_OpenSave type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +66: IndexTest_OpenSave type parameter seqan::Index >, seqan::FMIndex > > OK +67: CSATest_IndexSA type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +67: CSATest_IndexSA type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +166: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +166: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +166: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_parallel_queue_example. +166: Return code was 0. +166: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/queue_example.cpp.stdout", "None". +166: Standard output was as expected. +166: Standard error was as expected. +153/415 Test #166: test_demo_dox_parallel_queue_example .............................................. Passed 0.46 sec test 190 Start 190: test_demo_tutorial_a_first_example_solution_6 @@ -308018,53 +306629,65 @@ 193: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_graph" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph.cpp.stdout" 193: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 193: Test timeout computed to be: 10000000 -test 194 - Start 194: test_demo_tutorial_alignment_graph_assignment1 - -194: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_graph_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph_assignment1.cpp.stdout" -194: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -194: Test timeout computed to be: 10000000 -153/415 Test #158: test_demo_dox_index_sufarray ...................................................... Passed 0.25 sec -174: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_stringset. -174: Return code was 0. -174: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/stringset.cpp.stdout", "None". -174: Standard output was as expected. -174: Standard error was as expected. -166: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_parallel_queue_example. -166: Return code was 0. -166: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/queue_example.cpp.stdout", "None". -166: Standard output was as expected. -166: Standard error was as expected. -test 195 - Start 195: test_demo_tutorial_alignment_scoring_scheme_affine_dgs - -195: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_affine_dgs" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_affine_dgs.cpp.stdout" -195: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -195: Test timeout computed to be: 10000000 -173: Return code was 0. -173: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/string2.cpp.stdout", "None". -173: Standard output was as expected. -173: Standard error was as expected. -180: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -180: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -180: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_scores_load_score. -180: Return code was 0. -180: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/scores/load_score.cpp.stdout", "None". -180: Standard output was as expected. -180: Standard error was as expected. -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +154/415 Test #105: test_test_seq_io .................................................................. Passed 1.34 sec +155/415 Test #156: test_demo_dox_index_mummy ......................................................... Passed 0.67 sec +167: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +167: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +167: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_parallel_splitter_example. +167: Return code was 0. +167: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/splitter_example.cpp.stdout", "None". +167: Standard output was as expected. +167: Standard error was as expected. +115: test_store_io_split_sam OK +168: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +168: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +168: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_score_score. +168: Return code was 0. +168: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/score/score.cpp.stdout", "None". +168: Standard output was as expected. +168: Standard error was as expected. +156/415 Test #168: test_demo_dox_score_score ......................................................... Passed 0.12 sec +169: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +169: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +169: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_seeds_seeds_chaining. +169: Return code was 0. +169: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_chaining.cpp.stdout", "None". +169: Standard output was as expected. +169: Standard error was as expected. +170: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +170: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 170: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_seeds_seeds_extension. 170: Return code was 0. 170: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_extension.cpp.stdout", "None". 170: Standard output was as expected. 170: Standard error was as expected. -178: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -178: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -178: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_filter_similar_sequences. -178: Return code was 0. -178: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/filter_similar_sequences.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/filter_similar_sequences.cpp.stderr". -178: Standard output was as expected. -178: Standard error was as expected. +157/415 Test #170: test_demo_dox_seeds_seeds_extension ............................................... Passed 0.11 sec +171: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +171: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +171: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_seq_io_fai_index_example. +172: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +172: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +172: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_container_view_zip. +172: Return code was 0. +172: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/container_view_zip.cpp.stdout", "None". +172: Standard output was as expected. +172: Standard error was as expected. +158/415 Test #172: test_demo_dox_sequence_container_view_zip ......................................... Passed 0.10 sec +173: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +173: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +173: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_string2. +173: Return code was 0. +173: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/string2.cpp.stdout", "None". +173: Standard output was as expected. +173: Standard error was as expected. +174: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +174: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +174: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_stringset. +174: Return code was 0. +174: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/stringset.cpp.stdout", "None". +174: Standard output was as expected. +174: Standard error was as expected. +159/415 Test #174: test_demo_dox_sequence_stringset .................................................. Passed 0.10 sec 175: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 175: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 175: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_stream_lexical_cast. @@ -308072,11 +306695,14 @@ 175: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/stream/lexical_cast.cpp.stdout", "None". 175: Standard output was as expected. 175: Standard error was as expected. -168: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_score_score. -168: Return code was 0. -168: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/score/score.cpp.stdout", "None". -168: Standard output was as expected. -168: Standard error was as expected. +160/415 Test #175: test_demo_dox_stream_lexical_cast ................................................. Passed 0.09 sec +176: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +176: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +176: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_align_gaps_clipping. +176: Return code was 0. +176: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/align_gaps_clipping.cpp.stdout", "None". +176: Standard output was as expected. +176: Standard error was as expected. 177: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 177: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 177: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_custom_file_endings. @@ -308084,58 +306710,52 @@ 177: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/custom_file_endings.cpp.stdout", "None". 177: Standard output was as expected. 177: Standard error was as expected. -176: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_align_gaps_clipping. -176: Return code was 0. -176: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/align_gaps_clipping.cpp.stdout", "None". -176: Standard output was as expected. -176: Standard error was as expected. -171: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_seq_io_fai_index_example. -171: Return code was 0. -171: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seq_io/fai_index_example.cpp.stdout", "None". -171: Standard output was as expected. -171: Standard error was as expected. -115: test_store_io_read_bam OK -115: ************************************** -115: Total Tests: 14 -115: Skipped: 0 -115: Errors: 0 -115: ************************************** +178: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +178: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +178: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_filter_similar_sequences. +178: Return code was 0. +178: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/filter_similar_sequences.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/filter_similar_sequences.cpp.stderr". +178: Standard output was as expected. +178: Standard error was as expected. 179: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 179: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +179: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_scores_init_score. +179: Return code was 0. +179: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/scores/init_score.cpp.stdout", "None". +179: Standard output was as expected. +179: Standard error was as expected. +180: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +180: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +180: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_scores_load_score. +180: Return code was 0. +180: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/scores/load_score.cpp.stdout", "None". +180: Standard output was as expected. +180: Standard error was as expected. +181: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +181: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +181: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_basic_code. +181: Return code was 0. +181: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code.cpp.stdout", "None". +181: Standard output was as expected. +181: Standard error was as expected. 182: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 182: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 182: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_basic_code_detailed. 182: Return code was 0. 182: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code_detailed.cpp.stdout", "None". 182: Standard output was as expected. -182: Standard error was as expected. -181: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -181: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -119: test_translation_stringset_multiframe_parallel OK -87: test_pipe_test_mapper OK -183: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -183: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -183: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_code_encapsulation. -184: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -184: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -185: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -185: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -172: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -172: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -187: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -187: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -190: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -190: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -154/415 Test #115: test_test_store ................................................................... Passed 0.56 sec -155/415 Test #166: test_demo_dox_parallel_queue_example .............................................. Passed 0.21 sec -156/415 Test #168: test_demo_dox_score_score ......................................................... Passed 0.19 sec -157/415 Test #170: test_demo_dox_seeds_seeds_extension ............................................... Passed 0.18 sec -158/415 Test #171: test_demo_dox_seq_io_fai_index_example ............................................ Passed 0.18 sec -159/415 Test #173: test_demo_dox_sequence_string2 .................................................... Passed 0.16 sec -160/415 Test #174: test_demo_dox_sequence_stringset .................................................. Passed 0.15 sec -161/415 Test #176: test_demo_howto_align_gaps_clipping ............................................... Passed 0.14 sec -162/415 Test #177: test_demo_howto_custom_file_endings ............................................... Passed 0.14 sec -163/415 Test #178: test_demo_howto_filter_similar_sequences .......................................... Passed 0.14 sec +test 194 + Start 194: test_demo_tutorial_alignment_graph_assignment1 + +194: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_graph_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph_assignment1.cpp.stdout" +194: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +194: Test timeout computed to be: 10000000 +test 195 + Start 195: test_demo_tutorial_alignment_scoring_scheme_affine_dgs + +195: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_affine_dgs" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_affine_dgs.cpp.stdout" +195: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +195: Test timeout computed to be: 10000000 test 196 Start 196: test_demo_tutorial_alignment_scoring_scheme_matrix @@ -308166,6 +306786,44 @@ 200: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_example_bitsPerValue" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_bitsPerValue.cpp.stdout" 200: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 200: Test timeout computed to be: 10000000 +182: Standard error was as expected. +183: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +183: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +183: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_code_encapsulation. +183: Return code was 0. +183: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/code_encapsulation.cpp.stdout", "None". +183: Standard output was as expected. +183: Standard error was as expected. +184: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +184: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +184: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_final_result. +184: Return code was 0. +184: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/final_result.cpp.stdout", "None". +184: Standard output was as expected. +184: Standard error was as expected. +186: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +186: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +186: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_2. +186: Return code was 0. +186: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_2.cpp.stdout", "None". +186: Standard output was as expected. +186: Standard error was as expected. +188: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +188: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +188: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_4. +188: Return code was 0. +188: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_4.cpp.stdout", "None". +188: Standard output was as expected. +188: Standard error was as expected. +161/415 Test #167: test_demo_dox_parallel_splitter_example ........................................... Passed 0.16 sec +162/415 Test #169: test_demo_dox_seeds_seeds_chaining ................................................ Passed 0.14 sec +163/415 Test #173: test_demo_dox_sequence_string2 .................................................... Passed 0.13 sec +164/415 Test #176: test_demo_howto_align_gaps_clipping ............................................... Passed 0.11 sec +165/415 Test #177: test_demo_howto_custom_file_endings ............................................... Passed 0.11 sec +166/415 Test #178: test_demo_howto_filter_similar_sequences .......................................... Passed 0.11 sec +167/415 Test #179: test_demo_howto_scores_init_score ................................................. Passed 0.11 sec +168/415 Test #180: test_demo_howto_scores_load_score ................................................. Passed 0.11 sec +169/415 Test #181: test_demo_tutorial_a_first_example_basic_code ..................................... Passed 0.10 sec test 201 Start 201: test_demo_tutorial_alphabets_example_ordValue @@ -308196,103 +306854,12 @@ 205: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_allocator" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/allocator.cpp.stdout" 205: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 205: Test timeout computed to be: 10000000 -164/415 Test #182: test_demo_tutorial_a_first_example_basic_code_detailed ............................ Passed 0.16 sec -183: Return code was 0. -183: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/code_encapsulation.cpp.stdout", "None". -183: Standard output was as expected. -183: Standard error was as expected. -188: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -188: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -188: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_4. -188: Return code was 0. -188: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_4.cpp.stdout", "None". -188: Standard output was as expected. -188: Standard error was as expected. -186: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -186: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -186: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_2. test 206 Start 206: test_demo_tutorial_basics_base 206: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/base.cpp.stdout" 206: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 206: Test timeout computed to be: 10000000 -165/415 Test #183: test_demo_tutorial_a_first_example_code_encapsulation ............................. Passed 0.15 sec -166/415 Test #188: test_demo_tutorial_a_first_example_solution_4 ..................................... Passed 0.13 sec -186: Return code was 0. -186: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_2.cpp.stdout", "None". -186: Standard output was as expected. -186: Standard error was as expected. -189: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -189: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -189: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_5. -189: Return code was 0. -189: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_5.cpp.stdout", "None". -189: Standard output was as expected. -189: Standard error was as expected. -167/415 Test #189: test_demo_tutorial_a_first_example_solution_5 ..................................... Passed 0.12 sec -190: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_6. -190: Return code was 0. -190: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_6.cpp.stdout", "None". -190: Standard output was as expected. -190: Standard error was as expected. -168/415 Test #190: test_demo_tutorial_a_first_example_solution_6 ..................................... Passed 0.11 sec -179: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_scores_init_score. -179: Return code was 0. -179: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/scores/init_score.cpp.stdout", "None". -179: Standard output was as expected. -179: Standard error was as expected. -169/415 Test #179: test_demo_howto_scores_init_score ................................................. Passed 0.19 sec -170/415 Test #175: test_demo_dox_stream_lexical_cast ................................................. Passed 0.20 sec -181: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_basic_code. -181: Return code was 0. -181: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code.cpp.stdout", "None". -181: Standard output was as expected. -181: Standard error was as expected. -171/415 Test #181: test_demo_tutorial_a_first_example_basic_code ..................................... Passed 0.17 sec -80: .................................................................................................... -80: test_map_map OK -80: ************************************** -80: Total Tests: 1 -80: Skipped: 0 -80: Errors: 0 -80: ************************************** -172/415 Test #80: test_test_map ..................................................................... Passed 0.82 sec -184: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_final_result. -184: Return code was 0. -184: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/final_result.cpp.stdout", "None". -184: Standard output was as expected. -184: Standard error was as expected. -173/415 Test #184: test_demo_tutorial_a_first_example_final_result ................................... Passed 0.15 sec -116: FileStreamTest_ReadLarge type parameter seqan::MMap >, unsigned long> > OK -187: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_3. -187: Return code was 0. -187: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_3.cpp.stdout", "None". -187: Standard output was as expected. -187: Standard error was as expected. -174/415 Test #187: test_demo_tutorial_a_first_example_solution_3 ..................................... Passed 0.14 sec -172: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_container_view_zip. -172: Return code was 0. -172: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/container_view_zip.cpp.stdout", "None". -172: Standard output was as expected. -172: Standard error was as expected. -175/415 Test #172: test_demo_dox_sequence_container_view_zip ......................................... Passed 0.23 sec -185: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_1. -185: Return code was 0. -185: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_1.cpp.stdout", "None". -185: Standard output was as expected. -185: Standard error was as expected. -176/415 Test #185: test_demo_tutorial_a_first_example_solution_1 ..................................... Passed 0.15 sec -191: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -191: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -194: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -194: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -177/415 Test #180: test_demo_howto_scores_load_score ................................................. Passed 0.18 sec -192: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -192: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -85: test_parallel_atomic_cas OK -193: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -193: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") test 207 Start 207: test_demo_tutorial_basics_show_alphabets @@ -308311,6 +306878,55 @@ 209: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/base.cpp.stdout" 209: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 209: Test timeout computed to be: 10000000 +170/415 Test #182: test_demo_tutorial_a_first_example_basic_code_detailed ............................ Passed 0.14 sec +171/415 Test #183: test_demo_tutorial_a_first_example_code_encapsulation ............................. Passed 0.46 sec +172/415 Test #184: test_demo_tutorial_a_first_example_final_result ................................... Passed 0.46 sec +173/415 Test #186: test_demo_tutorial_a_first_example_solution_2 ..................................... Passed 0.45 sec +187: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +187: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +187: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_3. +187: Return code was 0. +187: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_3.cpp.stdout", "None". +187: Standard output was as expected. +187: Standard error was as expected. +87: test_pipe_test_sorter OK +87: test_pipe_sampler OK +87: test_pipe_tupler OK +87: test_pipe_tupler_multi OK +87: ************************************** +87: Total Tests: 8 +87: Skipped: 0 +87: Errors: 0 +87: ************************************** +174/415 Test #87: test_test_pipe .................................................................... Passed 2.11 sec +189: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +189: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +189: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_5. +189: Return code was 0. +189: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_5.cpp.stdout", "None". +189: Standard output was as expected. +189: Standard error was as expected. +185: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +185: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +185: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_1. +185: Return code was 0. +185: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_1.cpp.stdout", "None". +185: Standard output was as expected. +185: Standard error was as expected. +190: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +190: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +190: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_6. +190: Return code was 0. +190: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_6.cpp.stdout", "None". +190: Standard output was as expected. +190: Standard error was as expected. +193: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +193: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +193: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_graph. +193: Return code was 0. +193: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph.cpp.stdout", "None". +193: Standard output was as expected. +193: Standard error was as expected. test 210 Start 210: test_demo_tutorial_bed_io_example1 @@ -308341,66 +306957,29 @@ 214: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_blast_io_read_assignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp.stdout" "--stderr-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp.stderr" 214: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 214: Test timeout computed to be: 10000000 -test 215 - Start 215: test_demo_tutorial_blast_io_write_assignment - -215: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_blast_io_write_assignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/write_assignment.cpp.stdout" "--stderr-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/write_assignment.cpp.stderr" -215: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -215: Test timeout computed to be: 10000000 -test 216 - Start 216: test_demo_tutorial_consensus_alignment_with_positions - -216: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_consensus_alignment_with_positions" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/with_positions.cpp.stdout" -216: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -216: Test timeout computed to be: 10000000 -test 217 - Start 217: test_demo_tutorial_consensus_alignment_without_positions - -217: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_consensus_alignment_without_positions" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp.stdout" -217: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -217: Test timeout computed to be: 10000000 -test 218 - Start 218: test_demo_tutorial_file_io_overview_example1 - -218: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/example1.cpp.stdout" -218: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -218: Test timeout computed to be: 10000000 -test 219 - Start 219: test_demo_tutorial_file_io_overview_solution1 - -219: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution1.cpp.stdout" -219: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -219: Test timeout computed to be: 10000000 -72: IndexFinderTest_FindFirstChar type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -72: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::IndexSa > OK -72: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::IndexEsa > OK -72: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -72: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -72: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -72: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::FMIndex > > OK -72: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -72: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -72: IndexFinderTest_StdString type parameter seqan::Index >, seqan::IndexSa > OK -72: IndexFinderTest_StdString type parameter seqan::Index >, seqan::IndexEsa > OK -72: IndexFinderTest_StdString type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -72: IndexFinderTest_StdString type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -72: IndexFinderTest_StdString type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -72: IndexFinderTest_StdString type parameter seqan::Index >, seqan::FMIndex > > OK -72: IndexFinderTest_StdString type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -72: IndexFinderTest_StdString type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -72: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::IndexSa > OK -72: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::IndexEsa > OK -72: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -72: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -72: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -72: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::FMIndex > > OK -72: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -72: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -72: ************************************** -72: Total Tests: 32 -72: Skipped: 0 -72: Errors: 0 -72: ************************************** +192: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +192: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +192: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_align_assignment1. +192: Return code was 0. +192: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align_assignment1.cpp.stdout", "None". +192: Standard output was as expected. +192: Standard error was as expected. +116: FileStreamTest_ReadLarge type parameter seqan::MMap >, unsigned long> > OK +116: FileStreamTest_WriteLarge type parameter seqan::Async OK +191: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +191: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +191: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_align. +191: Return code was 0. +191: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp.stdout", "None". +191: Standard output was as expected. +191: Standard error was as expected. +194: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +194: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +194: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_graph_assignment1. +194: Return code was 0. +194: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph_assignment1.cpp.stdout", "None". +194: Standard output was as expected. +194: Standard error was as expected. 195: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 195: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 195: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_affine_dgs. @@ -308408,16 +306987,52 @@ 195: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_affine_dgs.cpp.stdout", "None". 195: Standard output was as expected. 195: Standard error was as expected. -194: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_graph_assignment1. -194: Return code was 0. -194: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph_assignment1.cpp.stdout", "None". -194: Standard output was as expected. -194: Standard error was as expected. -192: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_align_assignment1. -192: Return code was 0. -192: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align_assignment1.cpp.stdout", "None". -192: Standard output was as expected. -192: Standard error was as expected. +196: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +196: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +196: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_matrix. +196: Return code was 0. +196: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_matrix.cpp.stdout", "None". +196: Standard output was as expected. +196: Standard error was as expected. +115: test_store_io_read_bam OK +115: ************************************** +115: Total Tests: 14 +115: Skipped: 0 +115: Errors: 0 +115: ************************************** +67: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +67: CSATest_IndexSA type parameter seqan::Index >, seqan::FMIndex > > OK +67: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +67: CSATest_IndexSA type parameter seqan::Index >, seqan::FMIndex > > OK +67: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +67: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +67: CSATest_BeginEnd type parameter seqan::Index >, seqan::FMIndex > > OK +197: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +197: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +197: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_simple. +197: Return code was 0. +197: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_simple.cpp.stdout", "None". +197: Standard output was as expected. +197: Standard error was as expected. +107: StringTestCommon_CopyConstructible type parameter seqan::String >, unsigned long> > > OK +171: Return code was 0. +171: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seq_io/fai_index_example.cpp.stdout", "None". +171: Standard output was as expected. +171: Standard error was as expected. +199: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +199: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +199: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_assignment_1_solution. +199: Return code was 0. +199: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/assignment_1_solution.cpp.stdout", "None". +199: Standard output was as expected. +199: Standard error was as expected. +198: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +198: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +198: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_assignment_1. +198: Return code was 0. +198: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/assignment_1.cpp.stdout", "None". +198: Standard output was as expected. +198: Standard error was as expected. 200: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 200: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 200: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_example_bitsPerValue. @@ -308425,11 +307040,7 @@ 200: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_bitsPerValue.cpp.stdout", "None". 200: Standard output was as expected. 200: Standard error was as expected. -191: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_align. -191: Return code was 0. -191: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp.stdout", "None". -191: Standard output was as expected. -191: Standard error was as expected. +85: test_parallel_thread_pool_join OK 201: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 201: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 201: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_example_ordValue. @@ -308437,50 +307048,13 @@ 201: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_ordValue.cpp.stdout", "None". 201: Standard output was as expected. 201: Standard error was as expected. -198: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -198: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -198: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_assignment_1. -198: Return code was 0. -198: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/assignment_1.cpp.stdout", "None". -198: Standard output was as expected. -198: Standard error was as expected. -197: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -197: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -197: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_simple. -197: Return code was 0. -197: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_simple.cpp.stdout", "None". -197: Standard output was as expected. -197: Standard error was as expected. -204: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -204: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -204: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basic_techniques_base. -204: Return code was 0. -204: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basic_techniques/base.cpp.stdout", "None". -204: Standard output was as expected. -204: Standard error was as expected. -196: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -196: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -196: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_matrix. -196: Return code was 0. -196: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_matrix.cpp.stdout", "None". -196: Standard output was as expected. -196: Standard error was as expected. -193: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_graph. -193: Return code was 0. -193: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph.cpp.stdout", "None". -193: Standard output was as expected. -193: Standard error was as expected. -24: test_alignment_free_alignment_free_comparison OK -24: test_alignment_free_count_kmers OK -24: test_alignment_free_calculate_periodicity OK -24: test_alignment_free_calculate_overlap_indicator OK -24: test_alignment_free_string_to_string_set OK -24: test_alignment_free_cut_ns OK -24: ************************************** -24: Total Tests: 14 -24: Skipped: 0 -24: Errors: 0 -24: ************************************** +202: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +202: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +202: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_example_size. +202: Return code was 0. +202: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_size.cpp.stdout", "None". +202: Standard output was as expected. +202: Standard error was as expected. 203: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 203: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 203: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_background_and_motivation_example. @@ -308488,49 +307062,96 @@ 203: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/background_and_motivation/example.cpp.stdout", "None". 203: Standard output was as expected. 203: Standard error was as expected. -199: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -199: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -199: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_assignment_1_solution. +204: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +204: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +204: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basic_techniques_base. +204: Return code was 0. +204: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basic_techniques/base.cpp.stdout", "None". +204: Standard output was as expected. +204: Standard error was as expected. 205: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 205: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 205: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_allocator. -202: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -202: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -66: IndexTest_IndexCreate type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -66: IndexTest_Length type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -66: IndexTest_Length type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -66: IndexTest_Length type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -66: IndexTest_Length type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -66: IndexTest_Length type parameter seqan::Index >, seqan::FMIndex > > OK -66: IndexTest_Length type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -66: IndexTest_Length type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -66: IndexTest_ClearEmpty type parameter seqan::Index >, seqan::FMIndex > > OK 206: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 206: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +206: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_base. +206: Return code was 0. +206: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/base.cpp.stdout", "None". +206: Standard output was as expected. +206: Standard error was as expected. 207: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 207: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +207: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_show_alphabets. +207: Return code was 0. +207: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/show_alphabets.cpp.stdout", "None". +207: Standard output was as expected. +207: Standard error was as expected. 208: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 208: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -178/415 Test #24: test_test_alignment_free .......................................................... Passed 1.17 sec -179/415 Test #72: test_test_index_finder ............................................................ Passed 0.95 sec -180/415 Test #186: test_demo_tutorial_a_first_example_solution_2 ..................................... Passed 0.22 sec -181/415 Test #191: test_demo_tutorial_alignment_align ................................................ Passed 0.19 sec -182/415 Test #192: test_demo_tutorial_alignment_align_assignment1 .................................... Passed 0.18 sec -183/415 Test #193: test_demo_tutorial_alignment_graph ................................................ Passed 0.17 sec -184/415 Test #194: test_demo_tutorial_alignment_graph_assignment1 .................................... Passed 0.15 sec -185/415 Test #195: test_demo_tutorial_alignment_scoring_scheme_affine_dgs ............................ Passed 0.15 sec -186/415 Test #197: test_demo_tutorial_alignment_scoring_scheme_simple ................................ Passed 0.13 sec -187/415 Test #200: test_demo_tutorial_alphabets_example_bitsPerValue ................................. Passed 0.12 sec -188/415 Test #201: test_demo_tutorial_alphabets_example_ordValue ..................................... Passed 0.11 sec -189/415 Test #204: test_demo_tutorial_basic_techniques_base .......................................... Passed 0.10 sec -190/415 Test #198: test_demo_tutorial_alphabets_assignment_1 ......................................... Passed 0.13 sec -191/415 Test #196: test_demo_tutorial_alignment_scoring_scheme_matrix ................................ Passed 0.14 sec -192/415 Test #203: test_demo_tutorial_background_and_motivation_example .............................. Passed 0.11 sec -202: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_example_size. +208: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_strings. +208: Return code was 0. +208: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/strings.cpp.stdout", "None". +208: Standard output was as expected. +208: Standard error was as expected. +209: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +209: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +209: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_base. +209: Return code was 0. +209: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/base.cpp.stdout", "None". +209: Standard output was as expected. +209: Standard error was as expected. +175/415 Test #171: test_demo_dox_seq_io_fai_index_example ............................................ Passed 0.53 sec +176/415 Test #185: test_demo_tutorial_a_first_example_solution_1 ..................................... Passed 0.48 sec +177/415 Test #187: test_demo_tutorial_a_first_example_solution_3 ..................................... Passed 0.47 sec +178/415 Test #188: test_demo_tutorial_a_first_example_solution_4 ..................................... Passed 0.47 sec +179/415 Test #189: test_demo_tutorial_a_first_example_solution_5 ..................................... Passed 0.46 sec +180/415 Test #192: test_demo_tutorial_alignment_align_assignment1 .................................... Passed 0.44 sec +181/415 Test #193: test_demo_tutorial_alignment_graph ................................................ Passed 0.44 sec +182/415 Test #194: test_demo_tutorial_alignment_graph_assignment1 .................................... Passed 0.43 sec +183/415 Test #195: test_demo_tutorial_alignment_scoring_scheme_affine_dgs ............................ Passed 0.43 sec +184/415 Test #196: test_demo_tutorial_alignment_scoring_scheme_matrix ................................ Passed 0.42 sec +185/415 Test #197: test_demo_tutorial_alignment_scoring_scheme_simple ................................ Passed 0.42 sec +186/415 Test #198: test_demo_tutorial_alphabets_assignment_1 ......................................... Passed 0.42 sec +187/415 Test #199: test_demo_tutorial_alphabets_assignment_1_solution ................................ Passed 0.42 sec +188/415 Test #200: test_demo_tutorial_alphabets_example_bitsPerValue ................................. Passed 0.41 sec +189/415 Test #201: test_demo_tutorial_alphabets_example_ordValue ..................................... Passed 0.41 sec +190/415 Test #202: test_demo_tutorial_alphabets_example_size ......................................... Passed 0.41 sec +191/415 Test #203: test_demo_tutorial_background_and_motivation_example .............................. Passed 0.40 sec +192/415 Test #204: test_demo_tutorial_basic_techniques_base .......................................... Passed 0.40 sec +193/415 Test #206: test_demo_tutorial_basics_base .................................................... Passed 0.39 sec +194/415 Test #207: test_demo_tutorial_basics_show_alphabets .......................................... Passed 0.38 sec +195/415 Test #208: test_demo_tutorial_basics_strings ................................................. Passed 0.38 sec +196/415 Test #209: test_demo_tutorial_bed_io_base .................................................... Passed 0.38 sec +test 215 + Start 215: test_demo_tutorial_blast_io_write_assignment + +215: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_blast_io_write_assignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/write_assignment.cpp.stdout" "--stderr-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/write_assignment.cpp.stderr" +215: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +215: Test timeout computed to be: 10000000 +test 216 + Start 216: test_demo_tutorial_consensus_alignment_with_positions + +216: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_consensus_alignment_with_positions" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/with_positions.cpp.stdout" +216: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +216: Test timeout computed to be: 10000000 +test 217 + Start 217: test_demo_tutorial_consensus_alignment_without_positions + +217: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_consensus_alignment_without_positions" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp.stdout" +217: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +217: Test timeout computed to be: 10000000 +test 218 + Start 218: test_demo_tutorial_file_io_overview_example1 + +218: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/example1.cpp.stdout" +218: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +218: Test timeout computed to be: 10000000 +test 219 + Start 219: test_demo_tutorial_file_io_overview_solution1 + +219: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution1.cpp.stdout" +219: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +219: Test timeout computed to be: 10000000 test 220 Start 220: test_demo_tutorial_file_io_overview_solution2 @@ -308603,11 +307224,6 @@ 231: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_3_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_3_solution.cpp.stdout" 231: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 231: Test timeout computed to be: 10000000 -202: Return code was 0. -202: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_size.cpp.stdout", "None". -202: Standard output was as expected. -202: Standard error was as expected. -193/415 Test #202: test_demo_tutorial_alphabets_example_size ......................................... Passed 0.20 sec test 232 Start 232: test_demo_tutorial_genome_annotations_assignment_4_solution @@ -308626,121 +307242,6 @@ 234: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/base.cpp.stdout" 234: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 234: Test timeout computed to be: 10000000 -206: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_base. -206: Return code was 0. -206: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/base.cpp.stdout", "None". -206: Standard output was as expected. -206: Standard error was as expected. -194/415 Test #206: test_demo_tutorial_basics_base .................................................... Passed 0.20 sec -209: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -209: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -209: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_base. -209: Return code was 0. -209: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/base.cpp.stdout", "None". -209: Standard output was as expected. -209: Standard error was as expected. -211: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -211: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -211: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution1. -211: Return code was 0. -211: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution1.cpp.stdout", "None". -211: Standard output was as expected. -211: Standard error was as expected. -195/415 Test #211: test_demo_tutorial_bed_io_solution1 ............................................... Passed 0.16 sec -210: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -210: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -210: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_example1. -210: Return code was 0. -210: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/example1.cpp.stdout", "None". -210: Standard output was as expected. -210: Standard error was as expected. -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK -208: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_strings. -208: Return code was 0. -208: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/strings.cpp.stdout", "None". -208: Standard output was as expected. -208: Standard error was as expected. -196/415 Test #208: test_demo_tutorial_basics_strings ................................................. Passed 0.18 sec -199: Return code was 0. -199: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/assignment_1_solution.cpp.stdout", "None". -199: Standard output was as expected. -199: Standard error was as expected. -197/415 Test #199: test_demo_tutorial_alphabets_assignment_1_solution ................................ Passed 0.23 sec -214: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -214: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -214: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_blast_io_read_assignment. -214: Return code was 0. -214: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp.stderr". -214: Standard output was as expected. -214: Standard error was as expected. -198/415 Test #214: test_demo_tutorial_blast_io_read_assignment ....................................... Passed 0.15 sec -69: TopDownIndexIteratorTest_Constructor type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index >, seqan::FMIndex > > OK -219: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -219: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -219: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution1. -219: Return code was 0. -219: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution1.cpp.stdout", "None". -219: Standard output was as expected. -219: Standard error was as expected. -218: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -218: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -218: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_example1. -216: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -216: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -216: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_consensus_alignment_with_positions. -216: Return code was 0. -216: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/with_positions.cpp.stdout", "None". -216: Standard output was as expected. -216: Standard error was as expected. -212: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -212: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -212: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution2. -212: Return code was 0. -212: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution2.cpp.stdout", "None". -212: Standard output was as expected. -212: Standard error was as expected. -85: test_parallel_atomic_min OK -207: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_show_alphabets. -207: Return code was 0. -207: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/show_alphabets.cpp.stdout", "None". -207: Standard output was as expected. -207: Standard error was as expected. -199/415 Test #207: test_demo_tutorial_basics_show_alphabets .......................................... Passed 0.18 sec -213: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -213: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -213: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution3. -213: Return code was 0. -213: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution3.cpp.stdout", "None". -213: Standard output was as expected. -213: Standard error was as expected. -200/415 Test #213: test_demo_tutorial_bed_io_solution3 ............................................... Passed 0.15 sec -215: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -215: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -215: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_blast_io_write_assignment. -215: Return code was 0. -215: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/write_assignment.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/write_assignment.cpp.stderr". -215: Standard output was as expected. -215: Standard error was as expected. -217: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -217: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -119: test_translation_stringset_multiframe_concatdirect_parallel OK -119: ************************************** -119: Total Tests: 10 -119: Skipped: 0 -119: Errors: 0 -119: ************************************** -201/415 Test #119: test_translation .................................................................. Passed 0.79 sec -220: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -220: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -220: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution2. -222: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -222: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -222: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_access_aligned_reads. test 235 Start 235: test_demo_tutorial_gff_and_gtf_io_example1 @@ -308753,6 +307254,25 @@ 236: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_example2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/example2.cpp.stdout" 236: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 236: Test timeout computed to be: 10000000 +197/415 Test #191: test_demo_tutorial_alignment_align ................................................ Passed 0.55 sec +198/415 Test #115: test_test_store ................................................................... Passed 2.13 sec +199/415 Test #190: test_demo_tutorial_a_first_example_solution_6 ..................................... Passed 0.87 sec +66: IndexTest_OpenSave type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +66: IndexTest_OpenSave type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +210: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +210: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +210: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_example1. +210: Return code was 0. +210: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/example1.cpp.stdout", "None". +210: Standard output was as expected. +210: Standard error was as expected. +211: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +211: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +211: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution1. +211: Return code was 0. +211: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution1.cpp.stdout", "None". +211: Standard output was as expected. +211: Standard error was as expected. test 237 Start 237: test_demo_tutorial_gff_and_gtf_io_solution1 @@ -308771,40 +307291,90 @@ 239: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution3.cpp.stdout" 239: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 239: Test timeout computed to be: 10000000 -test 240 - Start 240: test_demo_tutorial_graph_graph_algo_scc - -240: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_algo_scc" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_algo_scc.cpp.stdout" -240: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -240: Test timeout computed to be: 10000000 -test 241 - Start 241: test_demo_tutorial_graph_graph_dijkstra - -241: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_dijkstra" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_dijkstra.cpp.stdout" -241: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -241: Test timeout computed to be: 10000000 -test 242 - Start 242: test_demo_tutorial_graph_graph_hmm - -242: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_hmm" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_hmm.cpp.stdout" -242: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -242: Test timeout computed to be: 10000000 -test 243 - Start 243: test_demo_tutorial_graph_solution_1 - -243: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_solution_1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/solution_1.cpp.stdout" -243: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -243: Test timeout computed to be: 10000000 -226: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -226: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -226: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_generic_programming_example_hashing. -226: Return code was 0. -226: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/example_hashing.cpp.stdout", "None". -226: Standard output was as expected. -226: Standard error was as expected. +213: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +213: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +213: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution3. +213: Return code was 0. +213: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution3.cpp.stdout", "None". +213: Standard output was as expected. +213: Standard error was as expected. +212: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +212: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +212: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution2. +212: Return code was 0. +212: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution2.cpp.stdout", "None". +212: Standard output was as expected. +212: Standard error was as expected. +214: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +214: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +214: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_blast_io_read_assignment. +214: Return code was 0. +214: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp.stderr". +214: Standard output was as expected. +214: Standard error was as expected. +116: FileStreamTest_WriteLarge type parameter seqan::MMap >, unsigned long> > OK +116: FileStreamTest_SeekLarge type parameter seqan::Async OK +116: FileStreamTest_SeekLarge type parameter seqan::MMap >, unsigned long> > OK +116: VStreamTest_Construct type parameter seqan::Tag OK +116: VStreamTest_Construct type parameter seqan::Tag OK +116: VStreamTest_Construct type parameter seqan::Tag OK +116: VStreamTest_Construct type parameter seqan::Tag OK +116: VStreamTest_OpenClose type parameter seqan::Tag OK +116: VStreamTest_OpenClose type parameter seqan::Tag OK +116: VStreamTest_OpenClose type parameter seqan::Tag OK +116: VStreamTest_OpenClose type parameter seqan::Tag OK +205: Return code was 0. +205: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/allocator.cpp.stdout", "None". +205: Standard output was as expected. +205: Standard error was as expected. +67: CSATest_BeginEnd type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +67: CSATest_BeginEnd type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +67: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +67: CSATest_BeginEnd type parameter seqan::Index >, seqan::FMIndex > > OK +67: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +215: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +215: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +215: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_blast_io_write_assignment. +215: Return code was 0. +215: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/write_assignment.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/write_assignment.cpp.stderr". +215: Standard output was as expected. +215: Standard error was as expected. +216: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +216: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +216: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_consensus_alignment_with_positions. +216: Return code was 0. +216: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/with_positions.cpp.stdout", "None". +216: Standard output was as expected. +216: Standard error was as expected. +217: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +217: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +217: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_consensus_alignment_without_positions. +217: Return code was 0. +217: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp.stdout", "None". +217: Standard output was as expected. +217: Standard error was as expected. +218: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +218: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +218: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_example1. +219: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +219: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +219: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution1. +220: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +220: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +220: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution2. +221: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +221: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +221: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution3. +222: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +222: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +222: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_access_aligned_reads. 223: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 223: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 223: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_access_aligned_reads2. +223: Return code was 0. +223: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads2.cpp.stdout", "None". +223: Standard output was as expected. +223: Standard error was as expected. 224: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 224: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 224: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_base. @@ -308812,6 +307382,34 @@ 224: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/base.cpp.stdout", "None". 224: Standard output was as expected. 224: Standard error was as expected. +225: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +225: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +225: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_display_aligned_reads. +225: Return code was 0. +225: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp.stdout", "None". +225: Standard output was as expected. +225: Standard error was as expected. +226: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +226: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +226: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_generic_programming_example_hashing. +226: Return code was 0. +226: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/example_hashing.cpp.stdout", "None". +226: Standard output was as expected. +226: Standard error was as expected. +227: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +227: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +227: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_generic_programming_template_subclassing. +227: Return code was 0. +227: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/template_subclassing.cpp.stdout", "None". +227: Standard output was as expected. +227: Standard error was as expected. +228: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +228: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +228: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_1_hint. +228: Return code was 0. +228: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_hint.cpp.stdout", "None". +228: Standard output was as expected. +228: Standard error was as expected. 229: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 229: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 229: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_1_solution. @@ -308819,9 +307417,6 @@ 229: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_solution.cpp.stdout", "None". 229: Standard output was as expected. 229: Standard error was as expected. -225: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -225: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -225: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_display_aligned_reads. 230: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 230: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 230: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_2_solution. @@ -308829,77 +307424,13 @@ 230: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_2_solution.cpp.stdout", "None". 230: Standard output was as expected. 230: Standard error was as expected. -228: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -228: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -228: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_1_hint. -228: Return code was 0. -228: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_hint.cpp.stdout", "None". -228: Standard output was as expected. -228: Standard error was as expected. -116: FileStreamTest_WriteLarge type parameter seqan::Async OK -202/415 Test #209: test_demo_tutorial_bed_io_base .................................................... Passed 0.23 sec -203/415 Test #210: test_demo_tutorial_bed_io_example1 ................................................ Passed 0.23 sec -204/415 Test #212: test_demo_tutorial_bed_io_solution2 ............................................... Passed 0.22 sec -test 244 - Start 244: test_demo_tutorial_index_iterators_index_assignment1 - -244: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment1.cpp.stdout" -244: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -244: Test timeout computed to be: 10000000 -test 245 - Start 245: test_demo_tutorial_index_iterators_index_assignment2 - -245: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_assignment2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp.stdout" -245: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -245: Test timeout computed to be: 10000000 -test 246 - Start 246: test_demo_tutorial_index_iterators_index_bidirectional_search - -246: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_bidirectional_search" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_bidirectional_search.cpp.stdout" -246: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -246: Test timeout computed to be: 10000000 -205/415 Test #226: test_demo_tutorial_generic_programming_example_hashing ............................ Passed 0.15 sec -206/415 Test #224: test_demo_tutorial_fragment_store_base ............................................ Passed 0.16 sec -207/415 Test #229: test_demo_tutorial_genome_annotations_assignment_1_solution ....................... Passed 0.13 sec -208/415 Test #230: test_demo_tutorial_genome_annotations_assignment_2_solution ....................... Passed 0.12 sec -209/415 Test #228: test_demo_tutorial_genome_annotations_assignment_1_hint ........................... Passed 0.13 sec -217: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_consensus_alignment_without_positions. -217: Return code was 0. -217: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp.stdout", "None". -217: Standard output was as expected. -217: Standard error was as expected. -210/415 Test #217: test_demo_tutorial_consensus_alignment_without_positions .......................... Passed 0.21 sec -221: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -221: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -221: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution3. -222: Return code was 0. -222: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads.cpp.stdout", "None". -222: Standard output was as expected. -222: Standard error was as expected. -211/415 Test #222: test_demo_tutorial_fragment_store_access_aligned_reads ............................ Passed 0.18 sec -227: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -227: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -227: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_generic_programming_template_subclassing. -227: Return code was 0. -227: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/template_subclassing.cpp.stdout", "None". -227: Standard output was as expected. -227: Standard error was as expected. -212/415 Test #215: test_demo_tutorial_blast_io_write_assignment ...................................... Passed 0.23 sec -213/415 Test #216: test_demo_tutorial_consensus_alignment_with_positions ............................. Passed 0.22 sec -214/415 Test #219: test_demo_tutorial_file_io_overview_solution1 ..................................... Passed 0.20 sec -67: LFTest_IsSentinel type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -233: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -233: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -233: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_base. -233: Return code was 0. -233: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/base.cpp.stdout", "None". -233: Standard output was as expected. -233: Standard error was as expected. -220: Return code was 0. -220: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution2.cpp.stdout", "None". -220: Standard output was as expected. -220: Standard error was as expected. -215/415 Test #220: test_demo_tutorial_file_io_overview_solution2 ..................................... Passed 0.19 sec +231: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +231: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +231: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_3_solution. +231: Return code was 0. +231: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_3_solution.cpp.stdout", "None". +231: Standard output was as expected. +231: Standard error was as expected. 232: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 232: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 232: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_4_solution. @@ -308907,12 +307438,13 @@ 232: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_4_solution.cpp.stdout", "None". 232: Standard output was as expected. 232: Standard error was as expected. -218: Return code was 0. -218: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/example1.cpp.stdout", "None". -218: Standard output was as expected. -218: Standard error was as expected. -216/415 Test #218: test_demo_tutorial_file_io_overview_example1 ...................................... Passed 0.21 sec -87: test_pipe_test_mapper_partially_filled OK +233: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +233: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +233: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_base. +233: Return code was 0. +233: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/base.cpp.stdout", "None". +233: Standard output was as expected. +233: Standard error was as expected. 234: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 234: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 234: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_base. @@ -308920,13 +307452,13 @@ 234: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/base.cpp.stdout", "None". 234: Standard output was as expected. 234: Standard error was as expected. -231: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -231: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -231: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_3_solution. -85: test_parallel_atomic_max OK -85: test_parallel_splitter_equidistant OK -85: test_parallel_splitting_compute_splitters OK -85: test_parallel_sum OK +235: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +235: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +235: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_example1. +235: Return code was 0. +235: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/example1.cpp.stdout", "None". +235: Standard output was as expected. +235: Standard error was as expected. 236: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 236: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 236: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_example2. @@ -308934,6 +307466,71 @@ 236: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/example2.cpp.stdout", "None". 236: Standard output was as expected. 236: Standard error was as expected. +200/415 Test #205: test_demo_tutorial_basics_allocator ............................................... Passed 0.83 sec +201/415 Test #210: test_demo_tutorial_bed_io_example1 ................................................ Passed 0.48 sec +202/415 Test #211: test_demo_tutorial_bed_io_solution1 ............................................... Passed 0.47 sec +203/415 Test #212: test_demo_tutorial_bed_io_solution2 ............................................... Passed 0.47 sec +204/415 Test #213: test_demo_tutorial_bed_io_solution3 ............................................... Passed 0.47 sec +205/415 Test #214: test_demo_tutorial_blast_io_read_assignment ....................................... Passed 0.47 sec +206/415 Test #215: test_demo_tutorial_blast_io_write_assignment ...................................... Passed 0.44 sec +207/415 Test #216: test_demo_tutorial_consensus_alignment_with_positions ............................. Passed 0.43 sec +208/415 Test #217: test_demo_tutorial_consensus_alignment_without_positions .......................... Passed 0.43 sec +209/415 Test #223: test_demo_tutorial_fragment_store_access_aligned_reads2 ........................... Passed 0.40 sec +210/415 Test #224: test_demo_tutorial_fragment_store_base ............................................ Passed 0.40 sec +211/415 Test #225: test_demo_tutorial_fragment_store_display_aligned_reads ........................... Passed 0.40 sec +212/415 Test #226: test_demo_tutorial_generic_programming_example_hashing ............................ Passed 0.39 sec +213/415 Test #227: test_demo_tutorial_generic_programming_template_subclassing ....................... Passed 0.39 sec +214/415 Test #228: test_demo_tutorial_genome_annotations_assignment_1_hint ........................... Passed 0.38 sec +215/415 Test #229: test_demo_tutorial_genome_annotations_assignment_1_solution ....................... Passed 0.38 sec +216/415 Test #230: test_demo_tutorial_genome_annotations_assignment_2_solution ....................... Passed 0.37 sec +217/415 Test #231: test_demo_tutorial_genome_annotations_assignment_3_solution ....................... Passed 0.37 sec +218/415 Test #232: test_demo_tutorial_genome_annotations_assignment_4_solution ....................... Passed 0.37 sec +219/415 Test #233: test_demo_tutorial_genome_annotations_base ........................................ Passed 0.36 sec +220/415 Test #234: test_demo_tutorial_gff_and_gtf_io_base ............................................ Passed 0.36 sec +221/415 Test #235: test_demo_tutorial_gff_and_gtf_io_example1 ........................................ Passed 0.35 sec +222/415 Test #236: test_demo_tutorial_gff_and_gtf_io_example2 ........................................ Passed 0.35 sec +test 240 + Start 240: test_demo_tutorial_graph_graph_algo_scc + +240: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_algo_scc" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_algo_scc.cpp.stdout" +240: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +240: Test timeout computed to be: 10000000 +test 241 + Start 241: test_demo_tutorial_graph_graph_dijkstra + +241: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_dijkstra" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_dijkstra.cpp.stdout" +241: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +241: Test timeout computed to be: 10000000 +test 242 + Start 242: test_demo_tutorial_graph_graph_hmm + +242: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_hmm" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_hmm.cpp.stdout" +242: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +242: Test timeout computed to be: 10000000 +test 243 + Start 243: test_demo_tutorial_graph_solution_1 + +243: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_solution_1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/solution_1.cpp.stdout" +243: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +243: Test timeout computed to be: 10000000 +test 244 + Start 244: test_demo_tutorial_index_iterators_index_assignment1 + +244: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment1.cpp.stdout" +244: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +244: Test timeout computed to be: 10000000 +test 245 + Start 245: test_demo_tutorial_index_iterators_index_assignment2 + +245: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_assignment2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp.stdout" +245: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +245: Test timeout computed to be: 10000000 +test 246 + Start 246: test_demo_tutorial_index_iterators_index_bidirectional_search + +246: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_bidirectional_search" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_bidirectional_search.cpp.stdout" +246: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +246: Test timeout computed to be: 10000000 test 247 Start 247: test_demo_tutorial_index_iterators_index_preorder @@ -309006,28 +307603,6 @@ 258: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_assignment_1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_1.cpp.stdout" 258: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 258: Test timeout computed to be: 10000000 -238: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -238: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -238: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_solution2. -238: Return code was 0. -238: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution2.cpp.stdout", "None". -238: Standard output was as expected. -238: Standard error was as expected. -235: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -235: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -235: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_example1. -235: Return code was 0. -235: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/example1.cpp.stdout", "None". -235: Standard output was as expected. -235: Standard error was as expected. -225: Return code was 0. -225: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp.stdout", "None". -225: Standard output was as expected. -225: Standard error was as expected. -217/415 Test #227: test_demo_tutorial_generic_programming_template_subclassing ....................... Passed 0.20 sec -218/415 Test #232: test_demo_tutorial_genome_annotations_assignment_4_solution ....................... Passed 0.17 sec -219/415 Test #233: test_demo_tutorial_genome_annotations_base ........................................ Passed 0.16 sec -220/415 Test #234: test_demo_tutorial_gff_and_gtf_io_base ............................................ Passed 0.15 sec test 259 Start 259: test_demo_tutorial_indices_assignment_2 @@ -309052,41 +307627,67 @@ 262: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_1_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1_solution.cpp.stdout" 262: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 262: Test timeout computed to be: 10000000 -221/415 Test #238: test_demo_tutorial_gff_and_gtf_io_solution2 ....................................... Passed 0.15 sec -222/415 Test #235: test_demo_tutorial_gff_and_gtf_io_example1 ........................................ Passed 0.16 sec -223/415 Test #225: test_demo_tutorial_fragment_store_display_aligned_reads ........................... Passed 0.24 sec -241: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -241: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -241: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_dijkstra. -241: Return code was 0. -241: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_dijkstra.cpp.stdout", "None". -241: Standard output was as expected. -241: Standard error was as expected. -224/415 Test #241: test_demo_tutorial_graph_graph_dijkstra ........................................... Passed 0.13 sec -231: Return code was 0. -231: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_3_solution.cpp.stdout", "None". -231: Standard output was as expected. -231: Standard error was as expected. -225/415 Test #231: test_demo_tutorial_genome_annotations_assignment_3_solution ....................... Passed 0.21 sec -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -240: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -240: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -240: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_algo_scc. -240: Return code was 0. -240: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_algo_scc.cpp.stdout", "None". -240: Standard output was as expected. -240: Standard error was as expected. -226/415 Test #240: test_demo_tutorial_graph_graph_algo_scc ........................................... Passed 0.14 sec +116: VStreamTest_Decompression type parameter seqan::Tag OK +116: VStreamTest_Decompression type parameter seqan::Tag OK +116: VStreamTest_Decompression type parameter seqan::Tag OK +116: VStreamTest_Decompression type parameter seqan::Tag OK +116: VStreamTest_Compression type parameter seqan::Tag OK +116: VStreamTest_Compression type parameter seqan::Tag OK +67: CSATest_BeginEnd type parameter seqan::Index >, seqan::FMIndex > > OK 221: Return code was 0. 221: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution3.cpp.stdout", "None". 221: Standard output was as expected. 221: Standard error was as expected. -227/415 Test #221: test_demo_tutorial_file_io_overview_solution3 ..................................... Passed 0.27 sec -223: Return code was 0. -223: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads2.cpp.stdout", "None". -223: Standard output was as expected. -223: Standard error was as expected. -228/415 Test #223: test_demo_tutorial_fragment_store_access_aligned_reads2 ........................... Passed 0.26 sec +222: Return code was 0. +222: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads.cpp.stdout", "None". +222: Standard output was as expected. +222: Standard error was as expected. +107: StringTestCommon_CopyConstructible type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_CopyConstructible type parameter seqan::String > > OK +107: StringTestCommon_CopyConstructible type parameter seqan::String > > OK +107: StringTestCommon_CopyConstructible type parameter seqan::String > > OK +107: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_CopyConstructible type parameter seqan::String > OK +107: StringTestCommon_CopyConstructible type parameter seqan::String > OK +107: StringTestCommon_CopyConstructible type parameter seqan::String > OK +107: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_CopyConstructible type parameter seqan::String > OK +107: StringTestCommon_CopyConstructible type parameter seqan::String > OK +107: StringTestCommon_CopyConstructible type parameter seqan::String > OK +107: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_CopyConstructible type parameter seqan::String > OK +107: StringTestCommon_CopyConstructible type parameter seqan::String > OK +107: StringTestCommon_CopyConstructible type parameter seqan::String > OK +107: StringTestCommon_CopyConstructible type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_CopyConstructible type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_CopyConstructible type parameter std::vector, std::allocator > > OK +107: StringTestCommon_CopyConstructible type parameter std::vector > OK +107: StringTestCommon_CopyConstructible type parameter std::vector > OK +107: StringTestCommon_CopyConstructible type parameter std::vector > OK +107: StringTestCommon_CopyConstructible type parameter std::deque, std::allocator > > OK +107: StringTestCommon_CopyConstructible type parameter std::deque > OK +107: StringTestCommon_CopyConstructible type parameter std::deque > OK +107: StringTestCommon_CopyConstructible type parameter std::deque > OK +107: StringTestCommon_CopyConstructible type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_CopyConstructible type parameter std::forward_list > OK +107: StringTestCommon_CopyConstructible type parameter std::forward_list > OK +107: StringTestCommon_CopyConstructible type parameter std::forward_list > OK +107: StringTestCommon_CopyConstructible type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_CopyConstructible type parameter std::__cxx11::list > OK +107: StringTestCommon_CopyConstructible type parameter std::__cxx11::list > OK +107: StringTestCommon_CopyConstructible type parameter std::__cxx11::list > OK +107: StringTestCommon_LessOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_LessOperator type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_LessOperator type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_LessOperator type parameter seqan::String >, 4194304u, 2u> > > OK +66: ************************************** +66: Total Tests: 28 +66: Skipped: 0 +66: Errors: 0 +66: ************************************** +223/415 Test #66: test_test_index_base .............................................................. Passed 2.84 sec 237: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 237: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 237: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_solution1. @@ -309094,6 +307695,19 @@ 237: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution1.cpp.stdout", "None". 237: Standard output was as expected. 237: Standard error was as expected. +test 263 + Start 263: test_demo_tutorial_iterators_assignment_2_solution + +263: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_2_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_2_solution.cpp.stdout" +263: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +263: Test timeout computed to be: 10000000 +238: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +238: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +238: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_solution2. +238: Return code was 0. +238: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution2.cpp.stdout", "None". +238: Standard output was as expected. +238: Standard error was as expected. 239: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 239: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 239: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_solution3. @@ -309101,16 +307715,21 @@ 239: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution3.cpp.stdout", "None". 239: Standard output was as expected. 239: Standard error was as expected. -229/415 Test #239: test_demo_tutorial_gff_and_gtf_io_solution3 ....................................... Passed 0.15 sec -230/415 Test #236: test_demo_tutorial_gff_and_gtf_io_example2 ........................................ Passed 0.17 sec -244: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -244: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -244: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_assignment1. -244: Return code was 0. -244: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment1.cpp.stdout", "None". -244: Standard output was as expected. -244: Standard error was as expected. -231/415 Test #244: test_demo_tutorial_index_iterators_index_assignment1 .............................. Passed 0.11 sec +68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK +240: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +240: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +240: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_algo_scc. +240: Return code was 0. +240: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_algo_scc.cpp.stdout", "None". +240: Standard output was as expected. +240: Standard error was as expected. +241: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +241: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +241: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_dijkstra. +241: Return code was 0. +241: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_dijkstra.cpp.stdout", "None". +241: Standard output was as expected. +241: Standard error was as expected. 242: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 242: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 242: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_hmm. @@ -309118,20 +307737,16 @@ 242: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_hmm.cpp.stdout", "None". 242: Standard output was as expected. 242: Standard error was as expected. -232/415 Test #242: test_demo_tutorial_graph_graph_hmm ................................................ Passed 0.13 sec 243: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 243: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 243: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_solution_1. -243: Return code was 0. -243: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/solution_1.cpp.stdout", "None". -243: Standard output was as expected. -243: Standard error was as expected. -85: test_parallel_partial_sum OK -85: test_parallel_queue_simple OK -85: test_parallel_queue_resize OK -85: test_parallel_queue_non_pod OK -85: threads: 2 -85: writers: 1 +244: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +244: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +244: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_assignment1. +244: Return code was 0. +244: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment1.cpp.stdout", "None". +244: Standard output was as expected. +244: Standard error was as expected. 245: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 245: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 245: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_assignment2. @@ -309141,25 +307756,17 @@ 245: Standard error was as expected. 246: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 246: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -246: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_bidirectional_search. -246: Return code was 0. -246: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_bidirectional_search.cpp.stdout", "None". -246: Standard output was as expected. -246: Standard error was as expected. +247: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +247: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +247: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_preorder. +247: Return code was 0. +247: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_preorder.cpp.stdout", "None". +247: Standard output was as expected. +247: Standard error was as expected. +248: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +248: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 249: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 249: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -249: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_search. -249: Return code was 0. -249: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_search.cpp.stdout", "None". -249: Standard output was as expected. -249: Standard error was as expected. -250: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -250: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -250: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_search2. -250: Return code was 0. -250: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_search2.cpp.stdout", "None". -250: Standard output was as expected. -250: Standard error was as expected. 251: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 251: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 251: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_assignment2. @@ -309167,12 +307774,29 @@ 251: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_assignment2.cpp.stdout", "None". 251: Standard output was as expected. 251: Standard error was as expected. -test 263 - Start 263: test_demo_tutorial_iterators_assignment_2_solution - -263: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_2_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_2_solution.cpp.stdout" -263: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -263: Test timeout computed to be: 10000000 +252: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +252: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +252: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_solution1. +252: Return code was 0. +252: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution1.cpp.stdout", "None". +252: Standard output was as expected. +252: Standard error was as expected. +253: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +253: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +253: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_solution2. +255: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +255: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +256: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +256: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +224/415 Test #221: test_demo_tutorial_file_io_overview_solution3 ..................................... Passed 0.51 sec +225/415 Test #222: test_demo_tutorial_fragment_store_access_aligned_reads ............................ Passed 0.51 sec +226/415 Test #237: test_demo_tutorial_gff_and_gtf_io_solution1 ....................................... Passed 0.14 sec +227/415 Test #238: test_demo_tutorial_gff_and_gtf_io_solution2 ....................................... Passed 0.13 sec +228/415 Test #239: test_demo_tutorial_gff_and_gtf_io_solution3 ....................................... Passed 0.13 sec +229/415 Test #241: test_demo_tutorial_graph_graph_dijkstra ........................................... Passed 0.10 sec +230/415 Test #242: test_demo_tutorial_graph_graph_hmm ................................................ Passed 0.10 sec +231/415 Test #244: test_demo_tutorial_index_iterators_index_assignment1 .............................. Passed 0.09 sec +232/415 Test #247: test_demo_tutorial_index_iterators_index_preorder ................................. Passed 0.08 sec test 264 Start 264: test_demo_tutorial_iterators_assignment_3_workshop @@ -309227,26 +307851,16 @@ 272: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_online_search" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_online_search.cpp.stdout" 272: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 272: Test timeout computed to be: 10000000 -test 273 - Start 273: test_demo_tutorial_journaled_set_example_online_search_assignment1_hint - -273: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_online_search_assignment1_hint" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_online_search_assignment1_hint.cpp.stdout" -273: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -273: Test timeout computed to be: 10000000 -test 274 - Start 274: test_demo_tutorial_journaled_set_solution_online_search_assignment1 - -274: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment1.cpp.stdout" -274: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -274: Test timeout computed to be: 10000000 -253: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -253: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -253: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_solution2. +233/415 Test #245: test_demo_tutorial_index_iterators_index_assignment2 .............................. Passed 0.12 sec +246: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_bidirectional_search. +246: Return code was 0. +246: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_bidirectional_search.cpp.stdout", "None". +246: Standard output was as expected. +246: Standard error was as expected. 253: Return code was 0. 253: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution2.cpp.stdout", "None". 253: Standard output was as expected. 253: Standard error was as expected. -116: FileStreamTest_WriteLarge type parameter seqan::MMap >, unsigned long> > OK 254: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 254: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 254: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_solution3. @@ -309254,69 +307868,41 @@ 254: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution3.cpp.stdout", "None". 254: Standard output was as expected. 254: Standard error was as expected. -205: Return code was 0. -205: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/allocator.cpp.stdout", "None". -205: Standard output was as expected. -205: Standard error was as expected. -255: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -255: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -255: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indexed_fasta_io_base. -255: Return code was 0. -255: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/base.cpp.stdout", "None". -255: Standard output was as expected. -255: Standard error was as expected. -247: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -247: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -247: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_preorder. -247: Return code was 0. -247: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_preorder.cpp.stdout", "None". -247: Standard output was as expected. -247: Standard error was as expected. -248: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -248: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +250: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +250: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +250: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_search2. +250: Return code was 0. +250: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_search2.cpp.stdout", "None". +250: Standard output was as expected. +250: Standard error was as expected. +test 273 + Start 273: test_demo_tutorial_journaled_set_example_online_search_assignment1_hint + +273: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_online_search_assignment1_hint" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_online_search_assignment1_hint.cpp.stdout" +273: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +273: Test timeout computed to be: 10000000 248: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_property_maps. 248: Return code was 0. 248: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_property_maps.cpp.stdout", "None". 248: Standard output was as expected. 248: Standard error was as expected. -233/415 Test #205: test_demo_tutorial_basics_allocator ............................................... Passed 0.44 sec -234/415 Test #237: test_demo_tutorial_gff_and_gtf_io_solution1 ....................................... Passed 0.23 sec -235/415 Test #243: test_demo_tutorial_graph_solution_1 ............................................... Passed 0.18 sec -test 275 - Start 275: test_demo_tutorial_journaled_set_solution_online_search_assignment2 - -275: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment2.cpp.stdout" -275: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -275: Test timeout computed to be: 10000000 -test 276 - Start 276: test_demo_tutorial_journaled_set_solution_online_search_assignment3 - -276: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment3.cpp.stdout" -276: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -276: Test timeout computed to be: 10000000 -test 277 - Start 277: test_demo_tutorial_journaled_set_solution_online_search_assignment4 - -277: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment4" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment4.cpp.stdout" -277: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -277: Test timeout computed to be: 10000000 -236/415 Test #253: test_demo_tutorial_index_iterators_iterator_solution2 ............................. Passed 0.16 sec -116: FileStreamTest_SeekLarge type parameter seqan::Async OK -237/415 Test #254: test_demo_tutorial_index_iterators_iterator_solution3 ............................. Passed 0.15 sec -238/415 Test #255: test_demo_tutorial_indexed_fasta_io_base .......................................... Passed 0.15 sec -239/415 Test #247: test_demo_tutorial_index_iterators_index_preorder ................................. Passed 0.19 sec -240/415 Test #248: test_demo_tutorial_index_iterators_index_property_maps ............................ Passed 0.18 sec -252: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -252: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -252: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_solution1. -252: Return code was 0. -252: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution1.cpp.stdout", "None". -252: Standard output was as expected. -252: Standard error was as expected. -241/415 Test #252: test_demo_tutorial_index_iterators_iterator_solution1 ............................. Passed 0.16 sec -242/415 Test #249: test_demo_tutorial_index_iterators_index_search ................................... Passed 0.18 sec -243/415 Test #251: test_demo_tutorial_index_iterators_iterator_assignment2 ........................... Passed 0.17 sec -244/415 Test #245: test_demo_tutorial_index_iterators_index_assignment2 .............................. Passed 0.21 sec +256: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indexed_fasta_io_solution1. +256: Return code was 0. +256: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp.stderr". +256: Standard output was as expected. +256: Standard error was as expected. +249: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_search. +249: Return code was 0. +249: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_search.cpp.stdout", "None". +249: Standard output was as expected. +249: Standard error was as expected. +260: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +260: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +260: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_base. +260: Return code was 0. +260: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/base.cpp.stdout", "None". +260: Standard output was as expected. +260: Standard error was as expected. 257: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 257: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 257: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indexed_fasta_io_solution2. @@ -309324,24 +307910,11 @@ 257: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution2.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution2.cpp.stderr". 257: Standard output was as expected. 257: Standard error was as expected. -245/415 Test #257: test_demo_tutorial_indexed_fasta_io_solution2 ..................................... Passed 0.13 sec -259: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -259: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -259: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_assignment_2. -259: Return code was 0. -259: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_2.cpp.stdout", "None". -259: Standard output was as expected. -259: Standard error was as expected. -246/415 Test #259: test_demo_tutorial_indices_assignment_2 ........................................... Passed 0.12 sec -247/415 Test #250: test_demo_tutorial_index_iterators_index_search2 .................................. Passed 0.17 sec -248/415 Test #246: test_demo_tutorial_index_iterators_index_bidirectional_search ..................... Passed 0.20 sec -262: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -262: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -262: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_1_solution. -262: Return code was 0. -262: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1_solution.cpp.stdout", "None". -262: Standard output was as expected. -262: Standard error was as expected. +255: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indexed_fasta_io_base. +255: Return code was 0. +255: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/base.cpp.stdout", "None". +255: Standard output was as expected. +255: Standard error was as expected. 258: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 258: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 258: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_assignment_1. @@ -309349,7 +307922,6 @@ 258: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_1.cpp.stdout", "None". 258: Standard output was as expected. 258: Standard error was as expected. -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK 261: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 261: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 261: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_1. @@ -309357,29 +307929,35 @@ 261: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1.cpp.stdout", "None". 261: Standard output was as expected. 261: Standard error was as expected. -256: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -256: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -256: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indexed_fasta_io_solution1. -256: Return code was 0. -256: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp.stderr". -256: Standard output was as expected. -256: Standard error was as expected. -66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -260: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -260: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -260: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_base. -260: Return code was 0. -260: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/base.cpp.stdout", "None". -260: Standard output was as expected. -260: Standard error was as expected. +243: Return code was 0. +243: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/solution_1.cpp.stdout", "None". +243: Standard output was as expected. +243: Standard error was as expected. +259: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +259: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +259: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_assignment_2. +259: Return code was 0. +259: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_2.cpp.stdout", "None". +220: Return code was 0. +220: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution2.cpp.stdout", "None". +220: Standard output was as expected. +220: Standard error was as expected. 263: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 263: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 263: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_2_solution. 263: Return code was 0. 263: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_2_solution.cpp.stdout", "None". -263: Standard output was as expected. -263: Standard error was as expected. +262: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +262: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +262: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_1_solution. +262: Return code was 0. +262: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1_solution.cpp.stdout", "None". +67: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +67: ************************************** +67: Total Tests: 27 +67: Skipped: 0 +67: Errors: 0 +67: ************************************** 264: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 264: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 264: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_3_workshop. @@ -309392,8 +307970,6 @@ 265: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_3_workshop_solution. 265: Return code was 0. 265: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_3_workshop_solution.cpp.stdout", "None". -265: Standard output was as expected. -265: Standard error was as expected. 266: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 266: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 266: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_4_workshop_solution. @@ -309401,6 +307977,84 @@ 266: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_4_workshop_solution.cpp.stdout", "None". 266: Standard output was as expected. 266: Standard error was as expected. +267: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +267: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +267: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_base. +267: Return code was 0. +267: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/base.cpp.stdout", "None". +267: Standard output was as expected. +267: Standard error was as expected. +268: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +268: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +268: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_sequence_iterator_demo. +268: Return code was 0. +268: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/sequence_iterator_demo.cpp.stdout", "None". +268: Standard output was as expected. +268: Standard error was as expected. +269: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +269: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +269: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_base. +269: Return code was 0. +269: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/base.cpp.stdout", "None". +269: Standard output was as expected. +269: Standard error was as expected. +270: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +270: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +270: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_join. +270: Return code was 0. +270: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_join.cpp.stdout", "None". +270: Standard output was as expected. +270: Standard error was as expected. +271: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +271: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +271: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_journal_string_basic. +271: Return code was 0. +271: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_journal_string_basic.cpp.stdout", "None". +272: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +272: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +272: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_online_search. +234/415 Test #67: test_test_index_fm ................................................................ Passed 2.96 sec +235/415 Test #220: test_demo_tutorial_file_io_overview_solution2 ..................................... Passed 0.69 sec +236/415 Test #240: test_demo_tutorial_graph_graph_algo_scc ........................................... Passed 0.28 sec +237/415 Test #243: test_demo_tutorial_graph_solution_1 ............................................... Passed 0.27 sec +238/415 Test #246: test_demo_tutorial_index_iterators_index_bidirectional_search ..................... Passed 0.26 sec +239/415 Test #248: test_demo_tutorial_index_iterators_index_property_maps ............................ Passed 0.25 sec +240/415 Test #249: test_demo_tutorial_index_iterators_index_search ................................... Passed 0.25 sec +241/415 Test #250: test_demo_tutorial_index_iterators_index_search2 .................................. Passed 0.25 sec +242/415 Test #251: test_demo_tutorial_index_iterators_iterator_assignment2 ........................... Passed 0.24 sec +243/415 Test #252: test_demo_tutorial_index_iterators_iterator_solution1 ............................. Passed 0.24 sec +244/415 Test #253: test_demo_tutorial_index_iterators_iterator_solution2 ............................. Passed 0.24 sec +245/415 Test #254: test_demo_tutorial_index_iterators_iterator_solution3 ............................. Passed 0.23 sec +246/415 Test #255: test_demo_tutorial_indexed_fasta_io_base .......................................... Passed 0.23 sec +247/415 Test #256: test_demo_tutorial_indexed_fasta_io_solution1 ..................................... Passed 0.23 sec +248/415 Test #257: test_demo_tutorial_indexed_fasta_io_solution2 ..................................... Passed 0.23 sec +249/415 Test #258: test_demo_tutorial_indices_assignment_1 ........................................... Passed 0.22 sec +250/415 Test #260: test_demo_tutorial_indices_base ................................................... Passed 0.21 sec +251/415 Test #261: test_demo_tutorial_iterators_assignment_1 ......................................... Passed 0.21 sec +test 274 + Start 274: test_demo_tutorial_journaled_set_solution_online_search_assignment1 + +274: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment1.cpp.stdout" +274: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +274: Test timeout computed to be: 10000000 +test 275 + Start 275: test_demo_tutorial_journaled_set_solution_online_search_assignment2 + +275: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment2.cpp.stdout" +275: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +275: Test timeout computed to be: 10000000 +test 276 + Start 276: test_demo_tutorial_journaled_set_solution_online_search_assignment3 + +276: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment3.cpp.stdout" +276: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +276: Test timeout computed to be: 10000000 +test 277 + Start 277: test_demo_tutorial_journaled_set_solution_online_search_assignment4 + +277: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment4" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment4.cpp.stdout" +277: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +277: Test timeout computed to be: 10000000 test 278 Start 278: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base @@ -309479,70 +308133,30 @@ 290: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_msa" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/msa.cpp.stdout" 290: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 290: Test timeout computed to be: 10000000 -269: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -269: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -269: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_base. -269: Return code was 0. -269: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/base.cpp.stdout", "None". -269: Standard output was as expected. -269: Standard error was as expected. -267: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -267: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -267: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_base. -267: Return code was 0. -267: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/base.cpp.stdout", "None". -267: Standard output was as expected. -267: Standard error was as expected. -271: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -271: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -271: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_journal_string_basic. -271: Return code was 0. -271: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_journal_string_basic.cpp.stdout", "None". -271: Standard output was as expected. -271: Standard error was as expected. -268: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -268: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -268: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_sequence_iterator_demo. -268: Return code was 0. -268: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/sequence_iterator_demo.cpp.stdout", "None". -268: Standard output was as expected. -268: Standard error was as expected. -272: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -272: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -272: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_online_search. -85: stop reader #1 100000 -85: throughput: 686835 values/s -85: cap: 30 -85: test_parallel_queue_spsc_fixedsize OK -85: threads: 2 -85: writers: 1 -85: stop reader #1 100000 -85: throughput: 4275425 values/s -85: cap: 76331 -85: test_parallel_queue_spsc_dynamicsize OK -85: threads: 4 -85: writers: 1 -273: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -273: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -273: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_online_search_assignment1_hint. -273: Return code was 0. -273: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_online_search_assignment1_hint.cpp.stdout", "None". -273: Standard output was as expected. -273: Standard error was as expected. -249/415 Test #256: test_demo_tutorial_indexed_fasta_io_solution1 ..................................... Passed 0.21 sec -250/415 Test #258: test_demo_tutorial_indices_assignment_1 ........................................... Passed 0.20 sec -251/415 Test #261: test_demo_tutorial_iterators_assignment_1 ......................................... Passed 0.18 sec -252/415 Test #262: test_demo_tutorial_iterators_assignment_1_solution ................................ Passed 0.18 sec -253/415 Test #263: test_demo_tutorial_iterators_assignment_2_solution ................................ Passed 0.17 sec -254/415 Test #264: test_demo_tutorial_iterators_assignment_3_workshop ................................ Passed 0.16 sec -255/415 Test #265: test_demo_tutorial_iterators_assignment_3_workshop_solution ....................... Passed 0.16 sec -256/415 Test #266: test_demo_tutorial_iterators_assignment_4_workshop_solution ....................... Passed 0.16 sec test 291 Start 291: test_demo_tutorial_pairwise_sequence_alignment_alignment_banded 291: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_banded" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.stdout" 291: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 291: Test timeout computed to be: 10000000 +252/415 Test #264: test_demo_tutorial_iterators_assignment_3_workshop ................................ Passed 0.26 sec +265: Standard output was as expected. +265: Standard error was as expected. +253/415 Test #265: test_demo_tutorial_iterators_assignment_3_workshop_solution ....................... Passed 0.26 sec +254/415 Test #266: test_demo_tutorial_iterators_assignment_4_workshop_solution ....................... Passed 0.25 sec +255/415 Test #267: test_demo_tutorial_iterators_base ................................................. Passed 0.25 sec +256/415 Test #268: test_demo_tutorial_iterators_sequence_iterator_demo ............................... Passed 0.25 sec +257/415 Test #269: test_demo_tutorial_journaled_set_base ............................................. Passed 0.24 sec +258/415 Test #270: test_demo_tutorial_journaled_set_example_join ..................................... Passed 0.24 sec +271: Standard output was as expected. +271: Standard error was as expected. +259/415 Test #271: test_demo_tutorial_journaled_set_example_journal_string_basic ..................... Passed 0.23 sec +219: Return code was 0. +219: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution1.cpp.stdout", "None". +219: Standard output was as expected. +219: Standard error was as expected. +260/415 Test #219: test_demo_tutorial_file_io_overview_solution1 ..................................... Passed 0.79 sec +116: VStreamTest_Compression type parameter seqan::Tag OK test 292 Start 292: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 @@ -309585,36 +308199,38 @@ 298: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_local" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local.cpp.stdout" 298: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 298: Test timeout computed to be: 10000000 -257/415 Test #269: test_demo_tutorial_journaled_set_base ............................................. Passed 0.18 sec -258/415 Test #267: test_demo_tutorial_iterators_base ................................................. Passed 0.19 sec -259/415 Test #271: test_demo_tutorial_journaled_set_example_journal_string_basic ..................... Passed 0.17 sec -260/415 Test #268: test_demo_tutorial_iterators_sequence_iterator_demo ............................... Passed 0.19 sec -261/415 Test #273: test_demo_tutorial_journaled_set_example_online_search_assignment1_hint ........... Passed 0.16 sec -270: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -270: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -270: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_join. -270: Return code was 0. -270: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_join.cpp.stdout", "None". -270: Standard output was as expected. -270: Standard error was as expected. -262/415 Test #270: test_demo_tutorial_journaled_set_example_join ..................................... Passed 0.18 sec -275: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -275: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -275: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment2. -263/415 Test #260: test_demo_tutorial_indices_base ................................................... Passed 0.23 sec +test 299 + Start 299: test_demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1 + +299: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local_assignment1.cpp.stdout" +299: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +299: Test timeout computed to be: 10000000 +test 300 + Start 300: test_demo_tutorial_pairwise_sequence_alignment_assignment5 + +300: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5.cpp.stdout" +300: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +300: Test timeout computed to be: 10000000 +273: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +273: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +273: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_online_search_assignment1_hint. +273: Return code was 0. +273: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_online_search_assignment1_hint.cpp.stdout", "None". +273: Standard output was as expected. +273: Standard error was as expected. +261/415 Test #273: test_demo_tutorial_journaled_set_example_online_search_assignment1_hint ........... Passed 0.15 sec 274: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 274: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 274: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment1. -277: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -277: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -277: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment4. -67: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -67: LFTest_IsSentinel type parameter seqan::Index >, seqan::FMIndex > > OK -67: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -67: LFTest_IsSentinel type parameter seqan::Index >, seqan::FMIndex > > OK +275: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +275: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +275: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment2. 276: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 276: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 276: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment3. +277: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +277: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +277: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment4. 278: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 278: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 278: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_string_tree_journaled_string_tree_base. @@ -309629,6 +308245,13 @@ 279: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.stdout", "None". 279: Standard output was as expected. 279: Standard error was as expected. +280: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +280: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +280: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_metafunctions_assignment1_solution. +280: Return code was 0. +280: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/metafunctions/assignment1_solution.cpp.stdout", "None". +280: Standard output was as expected. +280: Standard error was as expected. 281: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 281: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 281: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_metafunctions_base. @@ -309636,24 +308259,95 @@ 281: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/metafunctions/base.cpp.stdout", "None". 281: Standard output was as expected. 281: Standard error was as expected. -test 299 - Start 299: test_demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1 - -299: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local_assignment1.cpp.stdout" -299: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -299: Test timeout computed to be: 10000000 -test 300 - Start 300: test_demo_tutorial_pairwise_sequence_alignment_assignment5 - -300: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5.cpp.stdout" -300: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -300: Test timeout computed to be: 10000000 +282: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +282: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +282: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_UNUSED_modcomplementdna. +282: Return code was 0. +282: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/UNUSED_modcomplementdna.cpp.stdout", "None". +282: Standard output was as expected. +282: Standard error was as expected. +283: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +283: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +283: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_assignment1. +283: Return code was 0. +283: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1.cpp.stdout", "None". +283: Standard output was as expected. +283: Standard error was as expected. +284: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +284: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +284: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_assignment1_solution. +284: Return code was 0. +284: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1_solution.cpp.stdout", "None". +284: Standard output was as expected. +284: Standard error was as expected. test 301 Start 301: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step1 301: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step1.cpp.stdout" 301: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 301: Test timeout computed to be: 10000000 +285: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +285: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +285: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_modreverse. +285: Return code was 0. +285: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/modreverse.cpp.stdout", "None". +285: Standard output was as expected. +285: Standard error was as expected. +287: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +287: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +287: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_nested. +287: Return code was 0. +287: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/nested.cpp.stdout", "None". +287: Standard output was as expected. +287: Standard error was as expected. +286: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +286: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +286: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_modview. +286: Return code was 0. +286: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/modview.cpp.stdout", "None". +286: Standard output was as expected. +286: Standard error was as expected. +289: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +289: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +289: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_consensus. +272: Return code was 0. +272: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_online_search.cpp.stdout", "None". +272: Standard output was as expected. +272: Standard error was as expected. +290: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +290: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +290: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_msa. +290: Return code was 0. +290: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/msa.cpp.stdout", "None". +290: Standard output was as expected. +290: Standard error was as expected. +288: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +288: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +288: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_assignment1. +288: Return code was 0. +288: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/assignment1.cpp.stdout", "None". +288: Standard output was as expected. +288: Standard error was as expected. +291: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +291: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +293: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +293: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +293: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2. +293: Return code was 0. +293: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment2.cpp.stdout", "None". +293: Standard output was as expected. +293: Standard error was as expected. +262/415 Test #272: test_demo_tutorial_journaled_set_example_online_search ............................ Passed 0.30 sec +263/415 Test #278: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base ............... Passed 0.13 sec +264/415 Test #279: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 ... Passed 0.13 sec +265/415 Test #280: test_demo_tutorial_metafunctions_assignment1_solution ............................. Passed 0.13 sec +266/415 Test #281: test_demo_tutorial_metafunctions_base ............................................. Passed 0.12 sec +267/415 Test #282: test_demo_tutorial_modifiers_UNUSED_modcomplementdna .............................. Passed 0.12 sec +268/415 Test #283: test_demo_tutorial_modifiers_assignment1 .......................................... Passed 0.12 sec +269/415 Test #284: test_demo_tutorial_modifiers_assignment1_solution ................................. Passed 0.11 sec +270/415 Test #285: test_demo_tutorial_modifiers_modreverse ........................................... Passed 0.11 sec +271/415 Test #286: test_demo_tutorial_modifiers_modview .............................................. Passed 0.10 sec +272/415 Test #287: test_demo_tutorial_modifiers_nested ............................................... Passed 0.10 sec test 302 Start 302: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step2 @@ -309678,115 +308372,12 @@ 305: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step5" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.stdout" 305: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 305: Test timeout computed to be: 10000000 -280: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -280: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -280: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_metafunctions_assignment1_solution. -280: Return code was 0. -280: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/metafunctions/assignment1_solution.cpp.stdout", "None". -280: Standard output was as expected. -280: Standard error was as expected. -283: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -283: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -283: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_assignment1. -283: Return code was 0. -283: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1.cpp.stdout", "None". -283: Standard output was as expected. -283: Standard error was as expected. -116: FileStreamTest_SeekLarge type parameter seqan::MMap >, unsigned long> > OK -116: VStreamTest_Construct type parameter seqan::Tag OK -116: VStreamTest_Construct type parameter seqan::Tag OK -116: VStreamTest_Construct type parameter seqan::Tag OK -116: VStreamTest_Construct type parameter seqan::Tag OK -116: VStreamTest_OpenClose type parameter seqan::Tag OK -116: VStreamTest_OpenClose type parameter seqan::Tag OK -116: VStreamTest_OpenClose type parameter seqan::Tag OK -116: VStreamTest_OpenClose type parameter seqan::Tag OK -116: VStreamTest_Decompression type parameter seqan::Tag OK -116: VStreamTest_Decompression type parameter seqan::Tag OK -116: VStreamTest_Decompression type parameter seqan::Tag OK -116: VStreamTest_Decompression type parameter seqan::Tag OK -282: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -282: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -282: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_UNUSED_modcomplementdna. -282: Return code was 0. -282: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/UNUSED_modcomplementdna.cpp.stdout", "None". -282: Standard output was as expected. -282: Standard error was as expected. -285: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -285: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -285: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_modreverse. -285: Return code was 0. -285: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/modreverse.cpp.stdout", "None". -285: Standard output was as expected. -285: Standard error was as expected. -287: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -287: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -287: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_nested. -287: Return code was 0. -287: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/nested.cpp.stdout", "None". -287: Standard output was as expected. -287: Standard error was as expected. -85: stop reader #2 32781 -85: stop reader #3 36475 -85: stop reader #1 30744 -85: throughput: 1188089 values/s -85: cap: 30 -85: test_parallel_queue_spmc_fixedsize OK -85: threads: 4 -85: writers: 1 -290: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -290: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -290: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_msa. -264/415 Test #281: test_demo_tutorial_metafunctions_base ............................................. Passed 0.12 sec test 306 Start 306: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step6 306: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step6" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp.stdout" 306: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 306: Test timeout computed to be: 10000000 -265/415 Test #280: test_demo_tutorial_metafunctions_assignment1_solution ............................. Passed 0.14 sec -266/415 Test #283: test_demo_tutorial_modifiers_assignment1 .......................................... Passed 0.12 sec -267/415 Test #282: test_demo_tutorial_modifiers_UNUSED_modcomplementdna .............................. Passed 0.13 sec -268/415 Test #285: test_demo_tutorial_modifiers_modreverse ........................................... Passed 0.11 sec -269/415 Test #287: test_demo_tutorial_modifiers_nested ............................................... Passed 0.10 sec -288: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -288: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -284: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -284: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -292: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -292: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -292: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1. -292: Return code was 0. -292: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp.stdout", "None". -292: Standard output was as expected. -292: Standard error was as expected. -270/415 Test #278: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base ............... Passed 0.15 sec -272: Return code was 0. -272: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_online_search.cpp.stdout", "None". -272: Standard output was as expected. -272: Standard error was as expected. -271/415 Test #272: test_demo_tutorial_journaled_set_example_online_search ............................ Passed 0.20 sec -272/415 Test #279: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 ... Passed 0.15 sec -291: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -291: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -291: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_banded. -296: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -296: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -296: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised. -286: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -286: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -298: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -298: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -295: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -295: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -289: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -289: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -297: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -297: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -293: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -293: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -294: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -294: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") test 307 Start 307: test_demo_tutorial_parsing_command_line_arguments_base @@ -309823,6 +308414,48 @@ 312: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3.cpp.stdout" 312: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 312: Test timeout computed to be: 10000000 +273/415 Test #290: test_demo_tutorial_multiple_sequence_alignment_msa ................................ Passed 0.12 sec +274/415 Test #288: test_demo_tutorial_multiple_sequence_alignment_assignment1 ........................ Passed 0.13 sec +291: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_banded. +291: Return code was 0. +291: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.stdout", "None". +291: Standard output was as expected. +291: Standard error was as expected. +295: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +295: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +295: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap. +295: Return code was 0. +295: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_overlap.cpp.stdout", "None". +295: Standard output was as expected. +295: Standard error was as expected. +292: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +292: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +292: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1. +292: Return code was 0. +292: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp.stdout", "None". +292: Standard output was as expected. +292: Standard error was as expected. +294: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +294: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +294: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3. +294: Return code was 0. +294: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp.stdout", "None". +294: Standard output was as expected. +294: Standard error was as expected. +297: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +297: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +297: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard. +297: Return code was 0. +297: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp.stdout", "None". +297: Standard output was as expected. +297: Standard error was as expected. +296: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +296: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +296: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised. +296: Return code was 0. +296: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_specialised.cpp.stdout", "None". +296: Standard output was as expected. +296: Standard error was as expected. test 313 Start 313: test_demo_tutorial_pattern_matching_assignment3_solution @@ -309835,54 +308468,20 @@ 314: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_approx" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_approx.cpp.stdout" 314: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 314: Test timeout computed to be: 10000000 -290: Return code was 0. -290: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/msa.cpp.stdout", "None". -290: Standard output was as expected. -290: Standard error was as expected. -276: Return code was 0. -276: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment3.cpp.stdout", "None". -276: Standard output was as expected. -276: Standard error was as expected. -296: Return code was 0. -296: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_specialised.cpp.stdout", "None". -296: Standard output was as expected. -296: Standard error was as expected. -291: Return code was 0. -291: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.stdout", "None". -291: Standard output was as expected. -291: Standard error was as expected. +275/415 Test #291: test_demo_tutorial_pairwise_sequence_alignment_alignment_banded ................... Passed 0.12 sec +276/415 Test #295: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap ........... Passed 0.09 sec +277/415 Test #292: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 ....... Passed 0.12 sec +278/415 Test #294: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 ....... Passed 0.10 sec +279/415 Test #297: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_standard .......... Passed 0.09 sec +280/415 Test #296: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised ....... Passed 0.09 sec +298: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +298: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 298: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_local. 298: Return code was 0. 298: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local.cpp.stdout", "None". 298: Standard output was as expected. 298: Standard error was as expected. -284: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_assignment1_solution. -284: Return code was 0. -284: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1_solution.cpp.stdout", "None". -284: Standard output was as expected. -284: Standard error was as expected. -295: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap. -295: Return code was 0. -295: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_overlap.cpp.stdout", "None". -295: Standard output was as expected. -295: Standard error was as expected. -288: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_assignment1. -288: Return code was 0. -288: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/assignment1.cpp.stdout", "None". -288: Standard output was as expected. -288: Standard error was as expected. -303: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -303: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -303: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step3. -303: Return code was 0. -303: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step3.cpp.stdout", "None". -303: Standard output was as expected. -303: Standard error was as expected. -297: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard. -297: Return code was 0. -297: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp.stdout", "None". -297: Standard output was as expected. -297: Standard error was as expected. +281/415 Test #293: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2 ....... Passed 0.11 sec 299: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 299: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 299: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1. @@ -309890,60 +308489,49 @@ 299: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local_assignment1.cpp.stdout", "None". 299: Standard output was as expected. 299: Standard error was as expected. -293: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2. -293: Return code was 0. -293: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment2.cpp.stdout", "None". -293: Standard output was as expected. -293: Standard error was as expected. -286: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_modview. -286: Return code was 0. -286: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/modview.cpp.stdout", "None". -286: Standard output was as expected. -286: Standard error was as expected. +282/415 Test #299: test_demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1 ........ Passed 0.08 sec +300: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +300: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +300: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5. +300: Return code was 0. +300: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5.cpp.stdout", "None". +300: Standard output was as expected. +300: Standard error was as expected. +283/415 Test #300: test_demo_tutorial_pairwise_sequence_alignment_assignment5 ........................ Passed 0.07 sec 275: Return code was 0. 275: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment2.cpp.stdout", "None". 275: Standard output was as expected. 275: Standard error was as expected. -116: VStreamTest_Compression type parameter seqan::Tag OK -302: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -302: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -289: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_consensus. -300: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -300: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +284/415 Test #275: test_demo_tutorial_journaled_set_solution_online_search_assignment2 ............... Passed 0.20 sec +274: Return code was 0. +274: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment1.cpp.stdout", "None". +274: Standard output was as expected. +274: Standard error was as expected. +285/415 Test #274: test_demo_tutorial_journaled_set_solution_online_search_assignment1 ............... Passed 0.20 sec +276: Return code was 0. +276: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment3.cpp.stdout", "None". +276: Standard output was as expected. +276: Standard error was as expected. +286/415 Test #276: test_demo_tutorial_journaled_set_solution_online_search_assignment3 ............... Passed 0.19 sec 301: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 301: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -294: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3. -305: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -305: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -307: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -307: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -273/415 Test #275: test_demo_tutorial_journaled_set_solution_online_search_assignment2 ............... Passed 0.22 sec -274/415 Test #276: test_demo_tutorial_journaled_set_solution_online_search_assignment3 ............... Passed 0.21 sec -275/415 Test #284: test_demo_tutorial_modifiers_assignment1_solution ................................. Passed 0.16 sec -276/415 Test #286: test_demo_tutorial_modifiers_modview .............................................. Passed 0.15 sec -277/415 Test #288: test_demo_tutorial_multiple_sequence_alignment_assignment1 ........................ Passed 0.14 sec -278/415 Test #290: test_demo_tutorial_multiple_sequence_alignment_msa ................................ Passed 0.13 sec -279/415 Test #291: test_demo_tutorial_pairwise_sequence_alignment_alignment_banded ................... Passed 0.12 sec -280/415 Test #292: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 ....... Passed 0.12 sec -281/415 Test #293: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2 ....... Passed 0.12 sec -282/415 Test #295: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap ........... Passed 0.11 sec -283/415 Test #296: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised ....... Passed 0.10 sec -284/415 Test #297: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_standard .......... Passed 0.10 sec -285/415 Test #298: test_demo_tutorial_pairwise_sequence_alignment_alignment_local .................... Passed 0.10 sec -286/415 Test #303: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step3 .................. Passed 0.07 sec -287/415 Test #299: test_demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1 ........ Passed 0.08 sec -116: VStreamTest_Compression type parameter seqan::Tag OK -302: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step2. -302: Return code was 0. -302: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step2.cpp.stdout", "None". -302: Standard output was as expected. -302: Standard error was as expected. -294: Return code was 0. -294: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp.stdout", "None". -294: Standard output was as expected. -294: Standard error was as expected. -304: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -304: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +301: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step1. +301: Return code was 0. +301: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step1.cpp.stdout", "None". +301: Standard output was as expected. +301: Standard error was as expected. +289: Return code was 0. +289: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/consensus.cpp.stdout", "None". +289: Standard output was as expected. +289: Standard error was as expected. +277: Return code was 0. +277: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment4.cpp.stdout", "None". +277: Standard output was as expected. +277: Standard error was as expected. +302: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +302: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +303: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +303: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") test 315 Start 315: test_demo_tutorial_pattern_matching_find_exact @@ -310016,27 +308604,35 @@ 326: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_example2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example2.cpp.stdout" 326: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 326: Test timeout computed to be: 10000000 +304: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +304: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +304: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step4. +304: Return code was 0. +304: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp.stdout", "None". +304: Standard output was as expected. +304: Standard error was as expected. +305: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +305: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +305: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step5. +305: Return code was 0. +305: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.stdout", "None". +305: Standard output was as expected. +305: Standard error was as expected. +262: Standard output was as expected. +262: Standard error was as expected. +259: Standard output was as expected. +259: Standard error was as expected. +263: Standard output was as expected. +263: Standard error was as expected. +287/415 Test #277: test_demo_tutorial_journaled_set_solution_online_search_assignment4 ............... Passed 0.24 sec +288/415 Test #289: test_demo_tutorial_multiple_sequence_alignment_consensus .......................... Passed 0.18 sec +289/415 Test #298: test_demo_tutorial_pairwise_sequence_alignment_alignment_local .................... Passed 0.13 sec test 327 Start 327: test_demo_tutorial_sam_and_bam_io_example7 327: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_example7" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example7.cpp.stdout" 327: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 327: Test timeout computed to be: 10000000 -308: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -308: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -308: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment1. -308: Return code was 0. -308: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1.cpp.stdout", "None". -308: Standard output was as expected. -308: Standard error was as expected. -288/415 Test #302: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step2 .................. Passed 0.13 sec -289/415 Test #294: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 ....... Passed 0.18 sec -304: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step4. -304: Return code was 0. -304: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp.stdout", "None". -304: Standard output was as expected. -304: Standard error was as expected. -290/415 Test #304: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step4 .................. Passed 0.12 sec test 328 Start 328: test_demo_tutorial_sam_and_bam_io_solution1 @@ -310049,15 +308645,56 @@ 329: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution2.cpp.stdout" 329: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 329: Test timeout computed to be: 10000000 -291/415 Test #308: test_demo_tutorial_pattern_matching_assignment1 ................................... Passed 0.11 sec -309: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -309: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -309: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment1_solution. -309: Return code was 0. -309: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1_solution.cpp.stdout", "None". -309: Standard output was as expected. -309: Standard error was as expected. -292/415 Test #309: test_demo_tutorial_pattern_matching_assignment1_solution .......................... Passed 0.11 sec +290/415 Test #304: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step4 .................. Passed 0.11 sec +291/415 Test #305: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step5 .................. Passed 0.10 sec +292/415 Test #262: test_demo_tutorial_iterators_assignment_1_solution ................................ Passed 0.46 sec +293/415 Test #259: test_demo_tutorial_indices_assignment_2 ........................................... Passed 0.49 sec +294/415 Test #263: test_demo_tutorial_iterators_assignment_2_solution ................................ Passed 0.46 sec +303: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step3. +303: Return code was 0. +303: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step3.cpp.stdout", "None". +303: Standard output was as expected. +303: Standard error was as expected. +295/415 Test #303: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step3 .................. Passed 0.11 sec +307: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +307: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +307: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_parsing_command_line_arguments_base. +307: Return code was 0. +307: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/base.cpp.stdout", "None". +307: Standard output was as expected. +307: Standard error was as expected. +296/415 Test #307: test_demo_tutorial_parsing_command_line_arguments_base ............................ Passed 0.10 sec +116: VStreamTest_Compression type parameter seqan::Tag OK +116: VStreamTest_AutoDetection type parameter seqan::Tag OK +116: VStreamTest_AutoDetection type parameter seqan::Tag OK +116: VStreamTest_AutoDetection type parameter seqan::Tag OK +116: VStreamTest_AutoDetection type parameter seqan::Tag OK +116: WriteTest_StdString type parameter seqan::String > OK +116: InputStreamTest_Open type parameter std::basic_fstream > OK +116: InputStreamTest_Open type parameter std::basic_ifstream > OK +302: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step2. +302: Return code was 0. +302: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step2.cpp.stdout", "None". +302: Standard output was as expected. +302: Standard error was as expected. +297/415 Test #302: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step2 .................. Passed 0.12 sec +306: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +306: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +306: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step6. +306: Return code was 0. +306: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp.stdout", "None". +306: Standard output was as expected. +306: Standard error was as expected. +298/415 Test #306: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step6 .................. Passed 0.11 sec +299/415 Test #301: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step1 .................. Passed 0.13 sec +308: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +308: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +308: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment1. +308: Return code was 0. +308: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1.cpp.stdout", "None". +308: Standard output was as expected. +308: Standard error was as expected. +300/415 Test #308: test_demo_tutorial_pattern_matching_assignment1 ................................... Passed 0.10 sec 310: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 310: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 310: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment2. @@ -310065,36 +308702,15 @@ 310: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2.cpp.stdout", "None". 310: Standard output was as expected. 310: Standard error was as expected. -293/415 Test #310: test_demo_tutorial_pattern_matching_assignment2 ................................... Passed 0.10 sec -301: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step1. -301: Return code was 0. -301: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step1.cpp.stdout", "None". -301: Standard output was as expected. -301: Standard error was as expected. -294/415 Test #301: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step1 .................. Passed 0.15 sec -307: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_parsing_command_line_arguments_base. -307: Return code was 0. -307: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/base.cpp.stdout", "None". -307: Standard output was as expected. -307: Standard error was as expected. -295/415 Test #307: test_demo_tutorial_parsing_command_line_arguments_base ............................ Passed 0.12 sec -300: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5. -300: Return code was 0. -300: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5.cpp.stdout", "None". -300: Standard output was as expected. -300: Standard error was as expected. -296/415 Test #300: test_demo_tutorial_pairwise_sequence_alignment_assignment5 ........................ Passed 0.15 sec -305: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step5. -305: Return code was 0. -305: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.stdout", "None". -305: Standard output was as expected. -305: Standard error was as expected. -297/415 Test #305: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step5 .................. Passed 0.13 sec -277: Return code was 0. -277: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment4.cpp.stdout", "None". -277: Standard output was as expected. -277: Standard error was as expected. -298/415 Test #277: test_demo_tutorial_journaled_set_solution_online_search_assignment4 ............... Passed 0.28 sec +301/415 Test #310: test_demo_tutorial_pattern_matching_assignment2 ................................... Passed 0.09 sec +309: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +309: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +309: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment1_solution. +309: Return code was 0. +309: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1_solution.cpp.stdout", "None". +309: Standard output was as expected. +309: Standard error was as expected. +302/415 Test #309: test_demo_tutorial_pattern_matching_assignment1_solution .......................... Passed 0.10 sec 311: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 311: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 311: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment2_solution. @@ -310102,25 +308718,7 @@ 311: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2_solution.cpp.stdout", "None". 311: Standard output was as expected. 311: Standard error was as expected. -306: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -306: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -306: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step6. -306: Return code was 0. -306: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp.stdout", "None". -306: Standard output was as expected. -306: Standard error was as expected. -274: Return code was 0. -274: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment1.cpp.stdout", "None". -274: Standard output was as expected. -274: Standard error was as expected. -299/415 Test #274: test_demo_tutorial_journaled_set_solution_online_search_assignment1 ............... Passed 0.31 sec -314: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -314: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -314: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_approx. -314: Return code was 0. -314: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_approx.cpp.stdout", "None". -314: Standard output was as expected. -314: Standard error was as expected. +303/415 Test #311: test_demo_tutorial_pattern_matching_assignment2_solution .......................... Passed 0.09 sec 313: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 313: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 313: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment3_solution. @@ -310128,30 +308726,20 @@ 313: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3_solution.cpp.stdout", "None". 313: Standard output was as expected. 313: Standard error was as expected. -289: Return code was 0. -289: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/consensus.cpp.stdout", "None". -289: Standard output was as expected. -289: Standard error was as expected. -300/415 Test #289: test_demo_tutorial_multiple_sequence_alignment_consensus .......................... Passed 0.22 sec -67: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -67: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -67: CSATest_IndexSA type parameter seqan::Index >, seqan::FMIndex > > OK 312: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 312: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -85: stop reader #3 60905 -85: stop reader #2 14041 -85: stop reader #1 25054 -85: throughput: 716061 values/s -85: cap: 6698 -85: test_parallel_queue_spmc_dynamicsize OK -85: threads: 3 -85: writers: 2 -69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -69: ************************************** -69: Total Tests: 14 -69: Skipped: 0 -69: Errors: 0 -69: ************************************** +312: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment3. +312: Return code was 0. +312: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3.cpp.stdout", "None". +312: Standard output was as expected. +312: Standard error was as expected. +314: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +314: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +314: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_approx. +314: Return code was 0. +314: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_approx.cpp.stdout", "None". +314: Standard output was as expected. +314: Standard error was as expected. 315: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 315: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 315: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_exact. @@ -310166,8 +308754,13 @@ 316: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index.cpp.stdout", "None". 316: Standard output was as expected. 316: Standard error was as expected. -318: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -318: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +317: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +317: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +317: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_index_multiple. +317: Return code was 0. +317: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index_multiple.cpp.stdout", "None". +317: Standard output was as expected. +317: Standard error was as expected. test 330 Start 330: test_demo_tutorial_sam_and_bam_io_solution3 @@ -310246,96 +308839,19 @@ 342: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution5" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution5.cpp.stdout" 342: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 342: Test timeout computed to be: 10000000 -87: test_pipe_test_sorter OK -87: test_pipe_sampler OK -87: test_pipe_tupler OK -87: test_pipe_tupler_multi OK -87: ************************************** -87: Total Tests: 8 -87: Skipped: 0 -87: Errors: 0 -87: ************************************** -320: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -320: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -320: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_qgram. -320: Return code was 0. -320: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_qgram.cpp.stdout", "None". -320: Standard output was as expected. -320: Standard error was as expected. -66: IndexTest_ClearEmpty type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -66: IndexTest_OpenSave type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -66: IndexTest_OpenSave type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -66: IndexTest_OpenSave type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -66: IndexTest_OpenSave type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -66: IndexTest_OpenSave type parameter seqan::Index >, seqan::FMIndex > > OK -301/415 Test #69: test_test_index_vstree ............................................................ Passed 1.70 sec -302/415 Test #87: test_test_pipe .................................................................... Passed 1.58 sec -303/415 Test #306: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step6 .................. Passed 0.19 sec -304/415 Test #311: test_demo_tutorial_pattern_matching_assignment2_solution .......................... Passed 0.17 sec test 343 Start 343: test_demo_tutorial_seed_and_extend_solution6 343: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution6" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution6.cpp.stdout" 343: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 343: Test timeout computed to be: 10000000 -test 344 - Start 344: test_demo_tutorial_seeds_example1 - -344: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seeds_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp.stdout" -344: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -344: Test timeout computed to be: 10000000 -test 345 - Start 345: test_demo_tutorial_sequence_io_base - -345: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/base.cpp.stdout" -345: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -345: Test timeout computed to be: 10000000 -test 346 - Start 346: test_demo_tutorial_sequence_io_example1 - -346: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/example1.cpp.stdout" -346: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -346: Test timeout computed to be: 10000000 -305/415 Test #320: test_demo_tutorial_q_gram_index_index_qgram ....................................... Passed 0.14 sec -306/415 Test #314: test_demo_tutorial_pattern_matching_find_approx ................................... Passed 0.17 sec -322: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -322: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -322: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_realignment_step1. -322: Return code was 0. -322: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp.stdout", "None". -322: Standard output was as expected. -322: Standard error was as expected. -307/415 Test #322: test_demo_tutorial_realignment_step1 .............................................. Passed 0.13 sec -308/415 Test #313: test_demo_tutorial_pattern_matching_assignment3_solution .......................... Passed 0.18 sec -317: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -317: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -317: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_index_multiple. -317: Return code was 0. -317: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index_multiple.cpp.stdout", "None". -317: Standard output was as expected. -317: Standard error was as expected. -309/415 Test #317: test_demo_tutorial_pattern_matching_find_index_multiple ........................... Passed 0.16 sec +318: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +318: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 318: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_assignment5. 318: Return code was 0. 318: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment5.cpp.stdout", "None". 318: Standard output was as expected. 318: Standard error was as expected. -310/415 Test #318: test_demo_tutorial_q_gram_index_index_assignment5 ................................. Passed 0.15 sec -311/415 Test #315: test_demo_tutorial_pattern_matching_find_exact .................................... Passed 0.16 sec -312/415 Test #316: test_demo_tutorial_pattern_matching_find_index .................................... Passed 0.16 sec -312: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment3. -312: Return code was 0. -312: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3.cpp.stdout", "None". -312: Standard output was as expected. -312: Standard error was as expected. -313/415 Test #312: test_demo_tutorial_pattern_matching_assignment3 ................................... Passed 0.19 sec -319: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -319: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -319: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_assignment6. -319: Return code was 0. -319: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment6.cpp.stdout", "None". -319: Standard output was as expected. -319: Standard error was as expected. 321: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 321: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 321: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_qgram_hash. @@ -310343,16 +308859,20 @@ 321: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_qgram_hash.cpp.stdout", "None". 321: Standard output was as expected. 321: Standard error was as expected. -328: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -328: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -328: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_solution1. -328: Return code was 0. -328: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution1.cpp.stdout", "None". -328: Standard output was as expected. -328: Standard error was as expected. -327: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -327: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -327: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_example7. +320: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +320: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +320: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_qgram. +320: Return code was 0. +320: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_qgram.cpp.stdout", "None". +320: Standard output was as expected. +320: Standard error was as expected. +319: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +319: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +319: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_assignment6. +319: Return code was 0. +319: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment6.cpp.stdout", "None". +319: Standard output was as expected. +319: Standard error was as expected. 324: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 324: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 324: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_base. @@ -310360,12 +308880,16 @@ 324: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/base.cpp.stdout", "None". 324: Standard output was as expected. 324: Standard error was as expected. -85: stop reader #2 100000 -85: throughput: 1619168 values/s -85: cap: 30 -85: test_parallel_queue_mpsc_fixedsize OK -85: test_parallel_thread_pool_construct OK -85: test_parallel_thread_pool_spawn OK +322: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +322: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +322: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_realignment_step1. +322: Return code was 0. +322: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp.stdout", "None". +322: Standard output was as expected. +322: Standard error was as expected. +323: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +323: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +323: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_realignment_step2. 325: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 325: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 325: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_example1. @@ -310373,9 +308897,48 @@ 325: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example1.cpp.stdout", "None". 325: Standard output was as expected. 325: Standard error was as expected. -323: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -323: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -323: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_realignment_step2. +304/415 Test #312: test_demo_tutorial_pattern_matching_assignment3 ................................... Passed 0.15 sec +305/415 Test #313: test_demo_tutorial_pattern_matching_assignment3_solution .......................... Passed 0.34 sec +306/415 Test #314: test_demo_tutorial_pattern_matching_find_approx ................................... Passed 0.34 sec +307/415 Test #315: test_demo_tutorial_pattern_matching_find_exact .................................... Passed 0.33 sec +test 344 + Start 344: test_demo_tutorial_seeds_example1 + +344: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seeds_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp.stdout" +344: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +344: Test timeout computed to be: 10000000 +test 345 + Start 345: test_demo_tutorial_sequence_io_base + +345: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/base.cpp.stdout" +345: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +345: Test timeout computed to be: 10000000 +test 346 + Start 346: test_demo_tutorial_sequence_io_example1 + +346: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/example1.cpp.stdout" +346: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +346: Test timeout computed to be: 10000000 +test 347 + Start 347: test_demo_tutorial_sequence_io_solution1 + +347: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution1.cpp.stdout" +347: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +347: Test timeout computed to be: 10000000 +308/415 Test #318: test_demo_tutorial_q_gram_index_index_assignment5 ................................. Passed 0.33 sec +309/415 Test #321: test_demo_tutorial_q_gram_index_index_qgram_hash .................................. Passed 0.32 sec +310/415 Test #320: test_demo_tutorial_q_gram_index_index_qgram ....................................... Passed 0.32 sec +311/415 Test #319: test_demo_tutorial_q_gram_index_index_assignment6 ................................. Passed 0.33 sec +312/415 Test #324: test_demo_tutorial_sam_and_bam_io_base ............................................ Passed 0.31 sec +313/415 Test #322: test_demo_tutorial_realignment_step1 .............................................. Passed 0.31 sec +314/415 Test #325: test_demo_tutorial_sam_and_bam_io_example1 ........................................ Passed 0.30 sec +315/415 Test #317: test_demo_tutorial_pattern_matching_find_index_multiple ........................... Passed 0.34 sec +316/415 Test #316: test_demo_tutorial_pattern_matching_find_index .................................... Passed 0.34 sec +327: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +327: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +327: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_example7. +327: Return code was 0. +327: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example7.cpp.stdout", "None". 326: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 326: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 326: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_example2. @@ -310383,9 +308946,26 @@ 326: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example2.cpp.stdout", "None". 326: Standard output was as expected. 326: Standard error was as expected. +328: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +328: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +328: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_solution1. +328: Return code was 0. +328: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution1.cpp.stdout", "None". +328: Standard output was as expected. +328: Standard error was as expected. 329: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 329: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 329: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_solution2. +329: Return code was 0. +329: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution2.cpp.stdout", "None". +329: Standard output was as expected. +329: Standard error was as expected. +218: Return code was 0. +218: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/example1.cpp.stdout", "None". +218: Standard output was as expected. +218: Standard error was as expected. +317/415 Test #218: test_demo_tutorial_file_io_overview_example1 ...................................... Passed 1.26 sec +116: InputStreamTest_Get type parameter std::basic_fstream > OK 330: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 330: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 330: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_solution3. @@ -310395,6 +308975,18 @@ 330: Standard error was as expected. 331: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 331: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +331: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example1. +331: Return code was 0. +331: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example1.cpp.stdout", "None". +331: Standard output was as expected. +331: Standard error was as expected. +332: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +332: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +332: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example2. +332: Return code was 0. +332: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example2.cpp.stdout", "None". +332: Standard output was as expected. +332: Standard error was as expected. 333: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 333: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 333: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example3. @@ -310409,12 +309001,69 @@ 334: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.cpp.stdout", "None". 334: Standard output was as expected. 334: Standard error was as expected. -test 347 - Start 347: test_demo_tutorial_sequence_io_solution1 - -347: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution1.cpp.stdout" -347: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -347: Test timeout computed to be: 10000000 +335: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +335: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +335: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example5. +335: Return code was 0. +335: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example5.cpp.stdout", "None". +335: Standard output was as expected. +335: Standard error was as expected. +336: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +336: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +336: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example6. +336: Return code was 0. +336: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example6.cpp.stdout", "None". +336: Standard output was as expected. +336: Standard error was as expected. +337: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +337: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +337: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example7. +337: Return code was 0. +337: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp.stdout", "None". +337: Standard output was as expected. +337: Standard error was as expected. +338: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +338: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +338: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution1. +338: Return code was 0. +338: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution1.cpp.stdout", "None". +338: Standard output was as expected. +338: Standard error was as expected. +339: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +339: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +339: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution2. +339: Return code was 0. +339: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution2.cpp.stdout", "None". +339: Standard output was as expected. +339: Standard error was as expected. +340: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +340: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +340: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution3. +340: Return code was 0. +340: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution3.cpp.stdout", "None". +340: Standard output was as expected. +340: Standard error was as expected. +341: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +341: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +341: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution4. +341: Return code was 0. +341: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution4.cpp.stdout", "None". +341: Standard output was as expected. +341: Standard error was as expected. +342: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +342: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +342: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution5. +342: Return code was 0. +342: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution5.cpp.stdout", "None". +342: Standard output was as expected. +342: Standard error was as expected. +343: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +343: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +343: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution6. +343: Return code was 0. +343: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution6.cpp.stdout", "None". +343: Standard output was as expected. +343: Standard error was as expected. test 348 Start 348: test_demo_tutorial_sequence_io_solution2 @@ -310463,66 +309112,6 @@ 355: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_5_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_5_solution.cpp.stdout" 355: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 355: Test timeout computed to be: 10000000 -329: Return code was 0. -329: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution2.cpp.stdout", "None". -329: Standard output was as expected. -329: Standard error was as expected. -332: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -332: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -332: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example2. -332: Return code was 0. -332: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example2.cpp.stdout", "None". -332: Standard output was as expected. -332: Standard error was as expected. -335: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -335: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -335: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example5. -335: Return code was 0. -335: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example5.cpp.stdout", "None". -335: Standard output was as expected. -335: Standard error was as expected. -339: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -339: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -339: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution2. -339: Return code was 0. -339: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution2.cpp.stdout", "None". -339: Standard output was as expected. -339: Standard error was as expected. -337: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -337: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -337: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example7. -337: Return code was 0. -337: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp.stdout", "None". -337: Standard output was as expected. -337: Standard error was as expected. -336: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -336: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -336: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example6. -336: Return code was 0. -336: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example6.cpp.stdout", "None". -336: Standard output was as expected. -336: Standard error was as expected. -341: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -341: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -341: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution4. -341: Return code was 0. -341: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution4.cpp.stdout", "None". -341: Standard output was as expected. -341: Standard error was as expected. -338: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -338: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -338: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution1. -338: Return code was 0. -338: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution1.cpp.stdout", "None". -338: Standard output was as expected. -338: Standard error was as expected. -314/415 Test #319: test_demo_tutorial_q_gram_index_index_assignment6 ................................. Passed 0.20 sec -315/415 Test #321: test_demo_tutorial_q_gram_index_index_qgram_hash .................................. Passed 0.18 sec -316/415 Test #324: test_demo_tutorial_sam_and_bam_io_base ............................................ Passed 0.17 sec -317/415 Test #325: test_demo_tutorial_sam_and_bam_io_example1 ........................................ Passed 0.17 sec -318/415 Test #326: test_demo_tutorial_sam_and_bam_io_example2 ........................................ Passed 0.16 sec -319/415 Test #330: test_demo_tutorial_sam_and_bam_io_solution3 ....................................... Passed 0.14 sec -320/415 Test #333: test_demo_tutorial_seed_and_extend_example3 ....................................... Passed 0.13 sec test 356 Start 356: test_demo_tutorial_sequences_assignment_6_solution @@ -310535,6 +309124,17 @@ 357: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_comparisons" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_comparisons.cpp.stdout" 357: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 357: Test timeout computed to be: 10000000 +327: Standard output was as expected. +327: Standard error was as expected. +318/415 Test #328: test_demo_tutorial_sam_and_bam_io_solution1 ....................................... Passed 0.34 sec +319/415 Test #330: test_demo_tutorial_sam_and_bam_io_solution3 ....................................... Passed 0.32 sec +320/415 Test #332: test_demo_tutorial_seed_and_extend_example2 ....................................... Passed 0.31 sec +321/415 Test #335: test_demo_tutorial_seed_and_extend_example5 ....................................... Passed 0.29 sec +322/415 Test #336: test_demo_tutorial_seed_and_extend_example6 ....................................... Passed 0.29 sec +323/415 Test #337: test_demo_tutorial_seed_and_extend_example7 ....................................... Passed 0.29 sec +324/415 Test #339: test_demo_tutorial_seed_and_extend_solution2 ...................................... Passed 0.28 sec +325/415 Test #340: test_demo_tutorial_seed_and_extend_solution3 ...................................... Passed 0.28 sec +326/415 Test #342: test_demo_tutorial_seed_and_extend_solution5 ...................................... Passed 0.27 sec test 358 Start 358: test_demo_tutorial_sequences_example_conversions_copy @@ -310565,76 +309165,6 @@ 362: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_segments" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_segments.cpp.stdout" 362: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 362: Test timeout computed to be: 10000000 -321/415 Test #329: test_demo_tutorial_sam_and_bam_io_solution2 ....................................... Passed 0.17 sec -322/415 Test #332: test_demo_tutorial_seed_and_extend_example2 ....................................... Passed 0.16 sec -323/415 Test #335: test_demo_tutorial_seed_and_extend_example5 ....................................... Passed 0.14 sec -324/415 Test #339: test_demo_tutorial_seed_and_extend_solution2 ...................................... Passed 0.12 sec -325/415 Test #337: test_demo_tutorial_seed_and_extend_example7 ....................................... Passed 0.13 sec -326/415 Test #336: test_demo_tutorial_seed_and_extend_example6 ....................................... Passed 0.14 sec -327/415 Test #341: test_demo_tutorial_seed_and_extend_solution4 ...................................... Passed 0.11 sec -328/415 Test #338: test_demo_tutorial_seed_and_extend_solution1 ...................................... Passed 0.13 sec -329/415 Test #334: test_demo_tutorial_seed_and_extend_example4 ....................................... Passed 0.15 sec -340: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -340: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -340: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution3. -340: Return code was 0. -340: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution3.cpp.stdout", "None". -340: Standard output was as expected. -340: Standard error was as expected. -330/415 Test #340: test_demo_tutorial_seed_and_extend_solution3 ...................................... Passed 0.12 sec -331: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example1. -331: Return code was 0. -331: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example1.cpp.stdout", "None". -331: Standard output was as expected. -331: Standard error was as expected. -331/415 Test #331: test_demo_tutorial_seed_and_extend_example1 ....................................... Passed 0.16 sec -343: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -343: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -343: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution6. -343: Return code was 0. -343: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution6.cpp.stdout", "None". -343: Standard output was as expected. -343: Standard error was as expected. -332/415 Test #343: test_demo_tutorial_seed_and_extend_solution6 ...................................... Passed 0.10 sec -342: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -342: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -342: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution5. -342: Return code was 0. -342: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution5.cpp.stdout", "None". -342: Standard output was as expected. -342: Standard error was as expected. -327: Return code was 0. -327: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example7.cpp.stdout", "None". -327: Standard output was as expected. -327: Standard error was as expected. -333/415 Test #327: test_demo_tutorial_sam_and_bam_io_example7 ........................................ Passed 0.19 sec -334/415 Test #328: test_demo_tutorial_sam_and_bam_io_solution1 ....................................... Passed 0.18 sec -346: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -346: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -346: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_example1. -346: Return code was 0. -346: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/example1.cpp.stdout", "None". -346: Standard output was as expected. -346: Standard error was as expected. -345: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -345: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -345: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_base. -345: Return code was 0. -345: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/base.cpp.stdout", "None". -345: Standard output was as expected. -345: Standard error was as expected. -344: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -344: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -347: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -347: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -347: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution1. -348: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -348: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -348: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution2. -348: Return code was 0. -348: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution2.cpp.stdout", "None". -348: Standard output was as expected. -348: Standard error was as expected. test 363 Start 363: test_demo_tutorial_sequences_in_depth_assignment_exact_generous_solution @@ -310659,6 +309189,69 @@ 366: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/base.cpp.stdout" 366: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 366: Test timeout computed to be: 10000000 +327/415 Test #327: test_demo_tutorial_sam_and_bam_io_example7 ........................................ Passed 0.39 sec +328/415 Test #333: test_demo_tutorial_seed_and_extend_example3 ....................................... Passed 0.36 sec +329/415 Test #331: test_demo_tutorial_seed_and_extend_example1 ....................................... Passed 0.37 sec +330/415 Test #341: test_demo_tutorial_seed_and_extend_solution4 ...................................... Passed 0.32 sec +331/415 Test #343: test_demo_tutorial_seed_and_extend_solution6 ...................................... Passed 0.32 sec +332/415 Test #326: test_demo_tutorial_sam_and_bam_io_example2 ........................................ Passed 0.40 sec +333/415 Test #334: test_demo_tutorial_seed_and_extend_example4 ....................................... Passed 0.35 sec +334/415 Test #338: test_demo_tutorial_seed_and_extend_solution1 ...................................... Passed 0.34 sec +335/415 Test #329: test_demo_tutorial_sam_and_bam_io_solution2 ....................................... Passed 0.39 sec +344: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +344: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +344: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seeds_example1. +344: Return code was 0. +344: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp.stdout", "None". +344: Standard output was as expected. +344: Standard error was as expected. +346: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +346: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +346: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_example1. +346: Return code was 0. +346: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/example1.cpp.stdout", "None". +346: Standard output was as expected. +346: Standard error was as expected. +323: Return code was 0. +323: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp.stdout", "None". +323: Standard output was as expected. +323: Standard error was as expected. +336/415 Test #323: test_demo_tutorial_realignment_step2 .............................................. Passed 0.42 sec +345: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +345: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +345: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_base. +345: Return code was 0. +345: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/base.cpp.stdout", "None". +345: Standard output was as expected. +345: Standard error was as expected. +347: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +347: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +347: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution1. +347: Return code was 0. +347: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution1.cpp.stdout", "None". +347: Standard output was as expected. +347: Standard error was as expected. +348: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +348: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +348: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution2. +348: Return code was 0. +348: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution2.cpp.stdout", "None". +348: Standard output was as expected. +348: Standard error was as expected. +349: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +349: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +349: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution3. +349: Return code was 0. +349: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution3.cpp.stdout", "None". +349: Standard output was as expected. +349: Standard error was as expected. +350: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +350: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +350: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution4. +350: Return code was 0. +350: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution4.cpp.stdout", "None". +350: Standard output was as expected. +350: Standard error was as expected. test 367 Start 367: test_demo_tutorial_simple_rna_seq_genequant_assignment1 @@ -310719,12 +309312,6 @@ 376: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution5" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution5.cpp.stdout" 376: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 376: Test timeout computed to be: 10000000 -335/415 Test #342: test_demo_tutorial_seed_and_extend_solution5 ...................................... Passed 0.17 sec -336/415 Test #346: test_demo_tutorial_sequence_io_example1 ........................................... Passed 0.15 sec -347: Return code was 0. -347: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution1.cpp.stdout", "None". -347: Standard output was as expected. -347: Standard error was as expected. 351: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 351: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 351: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_1_solution. @@ -310739,13 +309326,6 @@ 352: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_2_solution.cpp.stdout", "None". 352: Standard output was as expected. 352: Standard error was as expected. -353: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -353: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -353: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_3_solution. -353: Return code was 0. -353: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_3_solution.cpp.stdout", "None". -353: Standard output was as expected. -353: Standard error was as expected. 354: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 354: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 354: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_4_solution. @@ -310753,37 +309333,13 @@ 354: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_4_solution.cpp.stdout", "None". 354: Standard output was as expected. 354: Standard error was as expected. -349: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -349: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -349: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution3. -349: Return code was 0. -349: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution3.cpp.stdout", "None". -349: Standard output was as expected. -349: Standard error was as expected. -test 377 - Start 377: test_demo_tutorial_simple_rna_seq_interval_tree - -377: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_interval_tree" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp.stdout" -377: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -377: Test timeout computed to be: 10000000 -test 378 - Start 378: test_demo_tutorial_string_sets_assignment_1_solution - -378: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_1_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_1_solution.cpp.stdout" -378: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -378: Test timeout computed to be: 10000000 -350: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -350: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -350: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution4. -350: Return code was 0. -350: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution4.cpp.stdout", "None". -350: Standard output was as expected. -350: Standard error was as expected. -344: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seeds_example1. -344: Return code was 0. -344: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp.stdout", "None". -344: Standard output was as expected. -344: Standard error was as expected. +353: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +353: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +353: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_3_solution. +353: Return code was 0. +353: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_3_solution.cpp.stdout", "None". +353: Standard output was as expected. +353: Standard error was as expected. 356: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 356: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 356: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_6_solution. @@ -310791,13 +309347,6 @@ 356: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_6_solution.cpp.stdout", "None". 356: Standard output was as expected. 356: Standard error was as expected. -358: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -358: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -358: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_conversions_copy. -358: Return code was 0. -358: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_conversions_copy.cpp.stdout", "None". -358: Standard output was as expected. -358: Standard error was as expected. 357: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 357: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 357: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_comparisons. @@ -310805,15 +309354,6 @@ 357: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_comparisons.cpp.stdout", "None". 357: Standard output was as expected. 357: Standard error was as expected. -116: VStreamTest_Compression type parameter seqan::Tag OK -116: VStreamTest_Compression type parameter seqan::Tag OK -116: VStreamTest_AutoDetection type parameter seqan::Tag OK -116: VStreamTest_AutoDetection type parameter seqan::Tag OK -116: VStreamTest_AutoDetection type parameter seqan::Tag OK -116: VStreamTest_AutoDetection type parameter seqan::Tag OK -116: WriteTest_StdString type parameter seqan::String > OK -116: InputStreamTest_Open type parameter std::basic_fstream > OK -116: InputStreamTest_Open type parameter std::basic_ifstream > OK 355: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 355: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 355: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_5_solution. @@ -310821,20 +309361,13 @@ 355: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_5_solution.cpp.stdout", "None". 355: Standard output was as expected. 355: Standard error was as expected. -361: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -361: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -361: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_functionality2. -361: Return code was 0. -361: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_functionality2.cpp.stdout", "None". -361: Standard output was as expected. -361: Standard error was as expected. -359: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -359: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -359: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_conversions_move. -359: Return code was 0. -359: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_conversions_move.cpp.stdout", "None". -359: Standard output was as expected. -359: Standard error was as expected. +358: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +358: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +358: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_conversions_copy. +358: Return code was 0. +358: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_conversions_copy.cpp.stdout", "None". +358: Standard output was as expected. +358: Standard error was as expected. 360: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 360: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 360: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_functionality1. @@ -310842,6 +309375,13 @@ 360: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_functionality1.cpp.stdout", "None". 360: Standard output was as expected. 360: Standard error was as expected. +361: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +361: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +361: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_functionality2. +361: Return code was 0. +361: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_functionality2.cpp.stdout", "None". +361: Standard output was as expected. +361: Standard error was as expected. 362: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 362: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 362: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_segments. @@ -310852,52 +309392,30 @@ 363: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 363: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 363: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution. -364: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -364: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -364: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_in_depth_base. -364: Return code was 0. -364: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/base.cpp.stdout", "None". -364: Standard output was as expected. -364: Standard error was as expected. -365: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -365: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -365: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_in_depth_example_overflow. -365: Return code was 0. -365: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/example_overflow.cpp.stdout", "None". -365: Standard output was as expected. -365: Standard error was as expected. -366: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -366: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -366: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_base. -366: Return code was 0. -366: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/base.cpp.stdout", "None". -366: Standard output was as expected. -366: Standard error was as expected. -367: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -367: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -368: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -368: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -368: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment2. -368: Return code was 0. -368: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment2.cpp.stdout", "None". -368: Standard output was as expected. -368: Standard error was as expected. -337/415 Test #344: test_demo_tutorial_seeds_example1 ................................................. Passed 0.18 sec -338/415 Test #345: test_demo_tutorial_sequence_io_base ............................................... Passed 0.17 sec -339/415 Test #347: test_demo_tutorial_sequence_io_solution1 .......................................... Passed 0.16 sec -340/415 Test #348: test_demo_tutorial_sequence_io_solution2 .......................................... Passed 0.15 sec -341/415 Test #349: test_demo_tutorial_sequence_io_solution3 .......................................... Passed 0.15 sec -342/415 Test #350: test_demo_tutorial_sequence_io_solution4 .......................................... Passed 0.14 sec -343/415 Test #351: test_demo_tutorial_sequences_assignment_1_solution ................................ Passed 0.14 sec -344/415 Test #352: test_demo_tutorial_sequences_assignment_2_solution ................................ Passed 0.13 sec -345/415 Test #353: test_demo_tutorial_sequences_assignment_3_solution ................................ Passed 0.13 sec -346/415 Test #354: test_demo_tutorial_sequences_assignment_4_solution ................................ Passed 0.13 sec -347/415 Test #355: test_demo_tutorial_sequences_assignment_5_solution ................................ Passed 0.12 sec -348/415 Test #356: test_demo_tutorial_sequences_assignment_6_solution ................................ Passed 0.11 sec -349/415 Test #357: test_demo_tutorial_sequences_example_comparisons .................................. Passed 0.11 sec -350/415 Test #358: test_demo_tutorial_sequences_example_conversions_copy ............................. Passed 0.10 sec -351/415 Test #359: test_demo_tutorial_sequences_example_conversions_move ............................. Passed 0.10 sec -352/415 Test #361: test_demo_tutorial_sequences_example_functionality2 ............................... Passed 0.09 sec +337/415 Test #344: test_demo_tutorial_seeds_example1 ................................................. Passed 0.17 sec +338/415 Test #345: test_demo_tutorial_sequence_io_base ............................................... Passed 0.16 sec +339/415 Test #346: test_demo_tutorial_sequence_io_example1 ........................................... Passed 0.16 sec +340/415 Test #347: test_demo_tutorial_sequence_io_solution1 .......................................... Passed 0.16 sec +341/415 Test #348: test_demo_tutorial_sequence_io_solution2 .......................................... Passed 0.15 sec +342/415 Test #349: test_demo_tutorial_sequence_io_solution3 .......................................... Passed 0.14 sec +343/415 Test #350: test_demo_tutorial_sequence_io_solution4 .......................................... Passed 0.14 sec +344/415 Test #351: test_demo_tutorial_sequences_assignment_1_solution ................................ Passed 0.13 sec +345/415 Test #352: test_demo_tutorial_sequences_assignment_2_solution ................................ Passed 0.13 sec +346/415 Test #353: test_demo_tutorial_sequences_assignment_3_solution ................................ Passed 0.13 sec +347/415 Test #354: test_demo_tutorial_sequences_assignment_4_solution ................................ Passed 0.13 sec +348/415 Test #356: test_demo_tutorial_sequences_assignment_6_solution ................................ Passed 0.12 sec +test 377 + Start 377: test_demo_tutorial_simple_rna_seq_interval_tree + +377: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_interval_tree" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp.stdout" +377: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +377: Test timeout computed to be: 10000000 +test 378 + Start 378: test_demo_tutorial_string_sets_assignment_1_solution + +378: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_1_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_1_solution.cpp.stdout" +378: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +378: Test timeout computed to be: 10000000 test 379 Start 379: test_demo_tutorial_string_sets_assignment_2 @@ -310958,6 +309476,56 @@ 388: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution1.cpp.stdout" 388: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 388: Test timeout computed to be: 10000000 +349/415 Test #357: test_demo_tutorial_sequences_example_comparisons .................................. Passed 0.17 sec +350/415 Test #355: test_demo_tutorial_sequences_assignment_5_solution ................................ Passed 0.36 sec +351/415 Test #358: test_demo_tutorial_sequences_example_conversions_copy ............................. Passed 0.34 sec +352/415 Test #360: test_demo_tutorial_sequences_example_functionality1 ............................... Passed 0.33 sec +353/415 Test #361: test_demo_tutorial_sequences_example_functionality2 ............................... Passed 0.33 sec +354/415 Test #362: test_demo_tutorial_sequences_example_segments ..................................... Passed 0.32 sec +364: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +364: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +364: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_in_depth_base. +364: Return code was 0. +364: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/base.cpp.stdout", "None". +364: Standard output was as expected. +364: Standard error was as expected. +355/415 Test #364: test_demo_tutorial_sequences_in_depth_base ........................................ Passed 0.32 sec +359: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +359: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +359: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_conversions_move. +359: Return code was 0. +359: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_conversions_move.cpp.stdout", "None". +359: Standard output was as expected. +359: Standard error was as expected. +356/415 Test #359: test_demo_tutorial_sequences_example_conversions_move ............................. Passed 0.34 sec +366: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +366: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +366: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_base. +366: Return code was 0. +366: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/base.cpp.stdout", "None". +366: Standard output was as expected. +366: Standard error was as expected. +365: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +365: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +365: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_in_depth_example_overflow. +365: Return code was 0. +365: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/example_overflow.cpp.stdout", "None". +365: Standard output was as expected. +365: Standard error was as expected. +368: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +368: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +368: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment2. +368: Return code was 0. +368: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment2.cpp.stdout", "None". +368: Standard output was as expected. +368: Standard error was as expected. +369: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +369: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +369: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment3. +369: Return code was 0. +369: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment3.cpp.stdout", "None". +369: Standard output was as expected. +369: Standard error was as expected. test 389 Start 389: test_demo_tutorial_vcf_io_solution2 @@ -310994,7 +309562,18 @@ 394: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/run_tests.py" "/build/reproducible-path/seqan2-2.4.0+dfsg" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" 394: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf 394: Test timeout computed to be: 10000000 -353/415 Test #360: test_demo_tutorial_sequences_example_functionality1 ............................... Passed 0.19 sec +test 395 + Start 395: app_test_insegt + +395: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/run_tests.py" "/build/reproducible-path/seqan2-2.4.0+dfsg" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" +395: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/insegt +395: Test timeout computed to be: 10000000 +test 396 + Start 396: app_test_micro_razers + +396: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/run_tests.py" "/build/reproducible-path/seqan2-2.4.0+dfsg" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" +396: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers +396: Test timeout computed to be: 10000000 370: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 370: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 370: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment4. @@ -311002,27 +309581,13 @@ 370: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment4.cpp.stdout", "None". 370: Standard output was as expected. 370: Standard error was as expected. -372: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -372: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -372: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution1. -372: Return code was 0. -372: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution1.cpp.stdout", "None". -372: Standard output was as expected. -372: Standard error was as expected. -374: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -374: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -374: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution3. -374: Return code was 0. -374: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp.stdout", "None". -374: Standard output was as expected. -374: Standard error was as expected. -test 395 - Start 395: app_test_insegt - -395: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/run_tests.py" "/build/reproducible-path/seqan2-2.4.0+dfsg" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" -395: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/insegt -395: Test timeout computed to be: 10000000 -67: CSATest_IndexSA type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +367: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +367: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +367: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment1. +367: Return code was 0. +367: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment1.cpp.stdout", "None". +367: Standard output was as expected. +367: Standard error was as expected. 373: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 373: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 373: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution2. @@ -311030,34 +309595,40 @@ 373: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution2.cpp.stdout", "None". 373: Standard output was as expected. 373: Standard error was as expected. -369: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -369: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -369: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment3. -369: Return code was 0. -369: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment3.cpp.stdout", "None". -369: Standard output was as expected. -369: Standard error was as expected. -367: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment1. -367: Return code was 0. -367: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment1.cpp.stdout", "None". -367: Standard output was as expected. -367: Standard error was as expected. +374: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +374: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +374: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution3. +374: Return code was 0. +374: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp.stdout", "None". 371: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 371: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 371: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment5. +371: Return code was 0. +371: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment5.cpp.stdout", "None". 375: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 375: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 375: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution4. 376: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 376: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 376: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution5. -378: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -378: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -378: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_1_solution. -378: Return code was 0. -378: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_1_solution.cpp.stdout", "None". -378: Standard output was as expected. -378: Standard error was as expected. +372: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +372: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +372: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution1. +372: Return code was 0. +372: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution1.cpp.stdout", "None". +372: Standard output was as expected. +372: Standard error was as expected. +116: InputStreamTest_Get type parameter std::basic_ifstream > OK +116: InputStreamTest_Eof type parameter std::basic_fstream > OK +116: InputStreamTest_Eof type parameter std::basic_ifstream > OK +116: OutputStreamTest_Open type parameter std::basic_fstream > OK +116: OutputStreamTest_Open type parameter std::basic_ofstream > OK +116: OutputStreamTest_Put type parameter std::basic_fstream > OK +116: OutputStreamTest_Put type parameter std::basic_ofstream > OK +116: InputStreamTest_Tell type parameter std::basic_fstream > OK +116: InputStreamTest_Tell type parameter std::basic_ifstream > OK +116: OutputStreamTest_Tell type parameter std::basic_fstream > OK +116: OutputStreamTest_Tell type parameter std::basic_ofstream > OK 377: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 377: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 377: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_interval_tree. @@ -311065,7 +309636,13 @@ 377: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp.stdout", "None". 377: Standard output was as expected. 377: Standard error was as expected. -66: IndexTest_OpenSave type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +378: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +378: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +378: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_1_solution. +378: Return code was 0. +378: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_1_solution.cpp.stdout", "None". +378: Standard output was as expected. +378: Standard error was as expected. 379: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 379: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 379: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_2. @@ -311076,8 +309653,24 @@ 380: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 380: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 380: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_2_solution. +380: Return code was 0. +380: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2_solution.cpp.stdout", "None". +380: Standard output was as expected. +380: Standard error was as expected. +381: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +381: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +381: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_3_workshop_solution. +381: Return code was 0. +381: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_3_workshop_solution.cpp.stdout", "None". +381: Standard output was as expected. +381: Standard error was as expected. 382: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 382: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +382: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_4_workshop_solution. +382: Return code was 0. +382: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_4_workshop_solution.cpp.stdout", "None". +382: Standard output was as expected. +382: Standard error was as expected. 383: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 383: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 383: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_functionality. @@ -311085,25 +309678,54 @@ 383: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality.cpp.stdout", "None". 383: Standard output was as expected. 383: Standard error was as expected. -354/415 Test #362: test_demo_tutorial_sequences_example_segments ..................................... Passed 0.20 sec -355/415 Test #364: test_demo_tutorial_sequences_in_depth_base ........................................ Passed 0.19 sec -356/415 Test #365: test_demo_tutorial_sequences_in_depth_example_overflow ............................ Passed 0.19 sec -357/415 Test #366: test_demo_tutorial_simple_rna_seq_base ............................................ Passed 0.18 sec -358/415 Test #367: test_demo_tutorial_simple_rna_seq_genequant_assignment1 ........................... Passed 0.17 sec -359/415 Test #368: test_demo_tutorial_simple_rna_seq_genequant_assignment2 ........................... Passed 0.17 sec -360/415 Test #369: test_demo_tutorial_simple_rna_seq_genequant_assignment3 ........................... Passed 0.17 sec -361/415 Test #370: test_demo_tutorial_simple_rna_seq_genequant_assignment4 ........................... Passed 0.16 sec -362/415 Test #372: test_demo_tutorial_simple_rna_seq_genequant_solution1 ............................. Passed 0.15 sec -363/415 Test #373: test_demo_tutorial_simple_rna_seq_genequant_solution2 ............................. Passed 0.15 sec -364/415 Test #374: test_demo_tutorial_simple_rna_seq_genequant_solution3 ............................. Passed 0.14 sec -365/415 Test #378: test_demo_tutorial_string_sets_assignment_1_solution .............................. Passed 0.12 sec -366/415 Test #379: test_demo_tutorial_string_sets_assignment_2 ....................................... Passed 0.11 sec -test 396 - Start 396: app_test_micro_razers - -396: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/run_tests.py" "/build/reproducible-path/seqan2-2.4.0+dfsg" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" -396: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers -396: Test timeout computed to be: 10000000 +384: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +384: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +384: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_functionality_2. +384: Return code was 0. +384: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality_2.cpp.stdout", "None". +384: Standard output was as expected. +384: Standard error was as expected. +385: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +385: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +385: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_iterators. +385: Return code was 0. +385: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_iterators.cpp.stdout", "None". +385: Standard output was as expected. +385: Standard error was as expected. +386: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +386: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +386: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_base. +386: Return code was 0. +386: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/base.cpp.stdout", "None". +386: Standard output was as expected. +386: Standard error was as expected. +387: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +387: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +387: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_example1. +387: Return code was 0. +387: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp.stdout", "None". +387: Standard output was as expected. +387: Standard error was as expected. +388: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +388: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +388: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_solution1. +388: Return code was 0. +388: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution1.cpp.stdout", "None". +388: Standard output was as expected. +388: Standard error was as expected. +357/415 Test #365: test_demo_tutorial_sequences_in_depth_example_overflow ............................ Passed 0.34 sec +358/415 Test #366: test_demo_tutorial_simple_rna_seq_base ............................................ Passed 0.68 sec +359/415 Test #367: test_demo_tutorial_simple_rna_seq_genequant_assignment1 ........................... Passed 0.67 sec +360/415 Test #368: test_demo_tutorial_simple_rna_seq_genequant_assignment2 ........................... Passed 0.67 sec +361/415 Test #369: test_demo_tutorial_simple_rna_seq_genequant_assignment3 ........................... Passed 0.66 sec +362/415 Test #370: test_demo_tutorial_simple_rna_seq_genequant_assignment4 ........................... Passed 0.66 sec +363/415 Test #377: test_demo_tutorial_simple_rna_seq_interval_tree ................................... Passed 0.62 sec +364/415 Test #378: test_demo_tutorial_string_sets_assignment_1_solution .............................. Passed 0.61 sec +365/415 Test #379: test_demo_tutorial_string_sets_assignment_2 ....................................... Passed 0.60 sec +366/415 Test #380: test_demo_tutorial_string_sets_assignment_2_solution .............................. Passed 0.60 sec +367/415 Test #383: test_demo_tutorial_string_sets_example_functionality .............................. Passed 0.58 sec +368/415 Test #385: test_demo_tutorial_string_sets_example_iterators .................................. Passed 0.57 sec +369/415 Test #388: test_demo_tutorial_vcf_io_solution1 ............................................... Passed 0.56 sec test 397 Start 397: app_test_ngs_roi @@ -311176,89 +309798,51 @@ 408: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/run_tests.py" "/build/reproducible-path/seqan2-2.4.0+dfsg" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" 408: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqan_tcoffee 408: Test timeout computed to be: 10000000 -367/415 Test #377: test_demo_tutorial_simple_rna_seq_interval_tree ................................... Passed 0.19 sec -368/415 Test #383: test_demo_tutorial_string_sets_example_functionality .............................. Passed 0.16 sec -385: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -385: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -385: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_iterators. -385: Return code was 0. -385: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_iterators.cpp.stdout", "None". -385: Standard output was as expected. -385: Standard error was as expected. -386: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -386: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -386: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_base. -386: Return code was 0. -386: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/base.cpp.stdout", "None". -386: Standard output was as expected. -386: Standard error was as expected. -388: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -388: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -388: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_solution1. -388: Return code was 0. -388: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution1.cpp.stdout", "None". -388: Standard output was as expected. -388: Standard error was as expected. -387: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -387: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -387: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_example1. -387: Return code was 0. -387: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp.stdout", "None". -387: Standard output was as expected. -387: Standard error was as expected. -381: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -381: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -381: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_3_workshop_solution. -381: Return code was 0. -381: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_3_workshop_solution.cpp.stdout", "None". -381: Standard output was as expected. -381: Standard error was as expected. -384: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -384: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -384: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_functionality_2. -384: Return code was 0. -384: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality_2.cpp.stdout", "None". -384: Standard output was as expected. -384: Standard error was as expected. test 409 Start 409: app_test_seqcons2 409: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/run_tests.py" "/build/reproducible-path/seqan2-2.4.0+dfsg" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" 409: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqcons2 409: Test timeout computed to be: 10000000 -test 410 - Start 410: app_test_sgip - -410: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/run_tests.py" "/build/reproducible-path/seqan2-2.4.0+dfsg" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" -410: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip -410: Test timeout computed to be: 10000000 -369/415 Test #385: test_demo_tutorial_string_sets_example_iterators .................................. Passed 0.16 sec -370/415 Test #386: test_demo_tutorial_vcf_io_base .................................................... Passed 0.15 sec -371/415 Test #388: test_demo_tutorial_vcf_io_solution1 ............................................... Passed 0.14 sec -372/415 Test #387: test_demo_tutorial_vcf_io_example1 ................................................ Passed 0.15 sec -373/415 Test #381: test_demo_tutorial_string_sets_assignment_3_workshop_solution ..................... Passed 0.19 sec -374/415 Test #384: test_demo_tutorial_string_sets_example_functionality_2 ............................ Passed 0.18 sec -382: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_4_workshop_solution. -382: Return code was 0. -382: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_4_workshop_solution.cpp.stdout", "None". -382: Standard output was as expected. -382: Standard error was as expected. -375/415 Test #382: test_demo_tutorial_string_sets_assignment_4_workshop_solution ..................... Passed 0.18 sec -371: Return code was 0. -371: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment5.cpp.stdout", "None". +370/415 Test #373: test_demo_tutorial_simple_rna_seq_genequant_solution2 ............................. Passed 0.70 sec +374: Standard output was as expected. +374: Standard error was as expected. +371/415 Test #374: test_demo_tutorial_simple_rna_seq_genequant_solution3 ............................. Passed 0.69 sec 371: Standard output was as expected. 371: Standard error was as expected. -376/415 Test #371: test_demo_tutorial_simple_rna_seq_genequant_assignment5 ........................... Passed 0.24 sec -380: Return code was 0. -380: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2_solution.cpp.stdout", "None". -380: Standard output was as expected. -380: Standard error was as expected. -377/415 Test #380: test_demo_tutorial_string_sets_assignment_2_solution .............................. Passed 0.19 sec +372/415 Test #371: test_demo_tutorial_simple_rna_seq_genequant_assignment5 ........................... Passed 0.71 sec 375: Return code was 0. 375: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution4.cpp.stdout", "None". 375: Standard output was as expected. 375: Standard error was as expected. -378/415 Test #375: test_demo_tutorial_simple_rna_seq_genequant_solution4 ............................. Passed 0.23 sec +373/415 Test #375: test_demo_tutorial_simple_rna_seq_genequant_solution4 ............................. Passed 0.69 sec +376: Return code was 0. +376: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution5.cpp.stdout", "None". +376: Standard output was as expected. +376: Standard error was as expected. +374/415 Test #376: test_demo_tutorial_simple_rna_seq_genequant_solution5 ............................. Passed 0.69 sec +375/415 Test #372: test_demo_tutorial_simple_rna_seq_genequant_solution1 ............................. Passed 0.71 sec +376/415 Test #381: test_demo_tutorial_string_sets_assignment_3_workshop_solution ..................... Passed 0.66 sec +377/415 Test #382: test_demo_tutorial_string_sets_assignment_4_workshop_solution ..................... Passed 0.65 sec +378/415 Test #384: test_demo_tutorial_string_sets_example_functionality_2 ............................ Passed 0.63 sec +379/415 Test #386: test_demo_tutorial_vcf_io_base .................................................... Passed 0.63 sec +380/415 Test #387: test_demo_tutorial_vcf_io_example1 ................................................ Passed 0.63 sec +363: Return code was 0. +363: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/assignment_exact_generous_solution.cpp.stdout", "None". +363: Standard output was as expected. +363: Standard error was as expected. +85: test_parallel_thread_pool_destruct OK +85: test_parallel_enumerable_thread_local_construct OK +85: test_parallel_enumerable_thread_local_local OK +85: test_parallel_enumerable_thread_local_enumerate OK +85: test_parallel_enumerable_thread_local_combine_unary OK +85: test_parallel_enumerable_thread_local_combine_binary OK +85: ************************************** +85: Total Tests: 29 +85: Skipped: 0 +85: Errors: 0 +85: ************************************** +381/415 Test #85: test_test_parallel ................................................................ Passed 4.28 sec 389: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 389: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 389: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_solution2. @@ -311266,17 +309850,6 @@ 389: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution2.cpp.stdout", "None". 389: Standard output was as expected. 389: Standard error was as expected. -379/415 Test #389: test_demo_tutorial_vcf_io_solution2 ............................................... Passed 0.14 sec -323: Return code was 0. -323: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp.stdout", "None". -323: Standard output was as expected. -323: Standard error was as expected. -380/415 Test #323: test_demo_tutorial_realignment_step2 .............................................. Passed 0.49 sec -376: Return code was 0. -376: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution5.cpp.stdout", "None". -376: Standard output was as expected. -376: Standard error was as expected. -381/415 Test #376: test_demo_tutorial_simple_rna_seq_genequant_solution5 ............................. Passed 0.22 sec 390: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 390: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 390: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_solution3. @@ -311284,21 +309857,12 @@ 390: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution3.cpp.stdout", "None". 390: Standard output was as expected. 390: Standard error was as expected. -399: TEST SUITE test_param_chooser -399: SEQAN_ENABLE_DEBUG == 1 -399: SEQAN_ENABLE_TESTING == 1 -399: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -399: SEQAN_ASYNC_IO == 1 -399: test_param_chooser_quality_distribution_from_prb_file OK -399: test_param_chooser_quality_distribution_from_fastq_file OK -399: test_param_chooser_parse_gapped_params OK -399: test_param_parse_shapes_from_file OK -399: ************************************** -399: Total Tests: 4 -399: Skipped: 0 -399: Errors: 0 -399: ************************************** -382/415 Test #399: test_test_funcs_param_chooser ..................................................... Passed 0.07 sec +test 410 + Start 410: app_test_sgip + +410: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip/tests/run_tests.py" "/build/reproducible-path/seqan2-2.4.0+dfsg" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" +410: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip +410: Test timeout computed to be: 10000000 test 411 Start 411: app_test_snp_store @@ -311329,328 +309893,513 @@ 415: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara/tests/run_tests.py" "/build/reproducible-path/seqan2-2.4.0+dfsg" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" 415: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara 415: Test timeout computed to be: 10000000 -383/415 Test #390: test_demo_tutorial_vcf_io_solution3 ............................................... Passed 0.16 sec -116: InputStreamTest_Get type parameter std::basic_fstream > OK -395: DELETING TEMP DIR /tmp/tmppagg96g6 -395: Executing test for insegt -395: ========================= -395: -395: insegt -ro /tmp/tmppagg96g6/default_readOutput.gff -ao /tmp/tmppagg96g6/default_annoOutput.gff -to /tmp/tmppagg96g6/default_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK -395: insegt -c 2 -ro /tmp/tmppagg96g6/threshold-count2_readOutput.gff -ao /tmp/tmppagg96g6/threshold-count2_annoOutput.gff -to /tmp/tmppagg96g6/threshold-count2_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK -395: insegt -n 3 -ro /tmp/tmppagg96g6/ntuple3_readOutput.gff -ao /tmp/tmppagg96g6/ntuple3_annoOutput.gff -to /tmp/tmppagg96g6/ntuple3_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK -395: insegt -m -ro /tmp/tmppagg96g6/max-tuple_readOutput.gff -ao /tmp/tmppagg96g6/max-tuple_annoOutput.gff -to /tmp/tmppagg96g6/max-tuple_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK -395: insegt -e -ro /tmp/tmppagg96g6/exact-ntuple_readOutput.gff -ao /tmp/tmppagg96g6/exact-ntuple_annoOutput.gff -to /tmp/tmppagg96g6/exact-ntuple_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK -395: ============================== -395: total tests: 5 -395: failed tests: 0 -395: successful tests: 5 -395: ============================== +382/415 Test #363: test_demo_tutorial_sequences_in_depth_assignment_exact_generous_solution .......... Passed 0.78 sec +383/415 Test #389: test_demo_tutorial_vcf_io_solution2 ............................................... Passed 0.46 sec +384/415 Test #390: test_demo_tutorial_vcf_io_solution3 ............................................... Passed 0.46 sec +116: ************************************** +116: Total Tests: 213 +116: Skipped: 0 +116: Errors: 0 +116: ************************************** +385/415 Test #116: test_test_stream .................................................................. Passed 3.86 sec +68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +399: TEST SUITE test_param_chooser +399: SEQAN_ENABLE_DEBUG == 1 +399: SEQAN_ENABLE_TESTING == 1 +399: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +399: SEQAN_ASYNC_IO == 1 +399: test_param_chooser_quality_distribution_from_prb_file OK +399: test_param_chooser_quality_distribution_from_fastq_file OK +399: test_param_chooser_parse_gapped_params OK +399: test_param_parse_shapes_from_file OK +399: ************************************** +399: Total Tests: 4 +399: Skipped: 0 +399: Errors: 0 +399: ************************************** +386/415 Test #399: test_test_funcs_param_chooser ..................................................... Passed 0.08 sec 415: /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara/tests/run_tests.py:25: SyntaxWarning: invalid escape sequence '\.' 415: app_tests.RegexpReplaceTransform("[0-9\.\-e]+ sec", "0.0 sec"), -384/415 Test #395: app_test_insegt ................................................................... Passed 0.17 sec -405: DELETING TEMP DIR /tmp/tmpwagni2hq +27: test_bam_io_bam_file_bam_file_seek OK +27: test_bam_io_sam_file_issue_489 OK +27: test_bam_io_bam_index_save OK +27: test_bam_io_bam_index_open OK +27: ************************************** +27: Total Tests: 107 +27: Skipped: 0 +27: Errors: 0 +27: ************************************** +387/415 Test #27: test_test_bam_io .................................................................. Passed 5.35 sec +107: StringTestCommon_LessOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +79: test_journaled_string_tree_find_horspool OK +58: testIndexCrossCompareDnaStrings OK +58: ************************************** +58: Total Tests: 2 +58: Skipped: 0 +58: Errors: 0 +58: ************************************** +388/415 Test #58: test_test_index_crosscompare_dna .................................................. Passed 5.93 sec +68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +397: DELETING TEMP DIR /tmp/tmpm4r3ncyr +397: Executing test for roi_intersect +397: ================================ +397: +397: roi_feature_projection -m projection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpm4r3ncyr/out_small_bed_mprojection_ss.roi OK +397: roi_feature_projection -m projection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpm4r3ncyr/out_small_bed_mprojection.roi OK +397: roi_feature_projection -m projection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpm4r3ncyr/out_small_gff_mprojection_ss.roi OK +397: roi_feature_projection -m projection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpm4r3ncyr/out_small_gff_mprojection.roi OK +397: roi_feature_projection -m projection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpm4r3ncyr/out_small_gtf_mprojection_ss.roi OK +397: roi_feature_projection -m projection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpm4r3ncyr/out_small_gtf_mprojection.roi OK +397: roi_feature_projection -m union -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpm4r3ncyr/out_small_bed_munion_ss.roi OK +397: roi_feature_projection -m union -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpm4r3ncyr/out_small_bed_munion.roi OK +397: roi_feature_projection -m union -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpm4r3ncyr/out_small_gff_munion_ss.roi OK +397: roi_feature_projection -m union -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpm4r3ncyr/out_small_gff_munion.roi OK +397: roi_feature_projection -m union -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpm4r3ncyr/out_small_gtf_munion_ss.roi OK +397: roi_feature_projection -m union -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpm4r3ncyr/out_small_gtf_munion.roi OK +397: roi_feature_projection -m difference -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpm4r3ncyr/out_small_bed_mdifference_ss.roi OK +397: roi_feature_projection -m difference -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpm4r3ncyr/out_small_bed_mdifference.roi OK +397: roi_feature_projection -m difference -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpm4r3ncyr/out_small_gff_mdifference_ss.roi OK +397: roi_feature_projection -m difference -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpm4r3ncyr/out_small_gff_mdifference.roi OK +397: roi_feature_projection -m difference -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpm4r3ncyr/out_small_gtf_mdifference_ss.roi OK +397: roi_feature_projection -m difference -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpm4r3ncyr/out_small_gtf_mdifference.roi OK +397: roi_feature_projection -m intersection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpm4r3ncyr/out_small_bed_mintersection_ss.roi OK +397: roi_feature_projection -m intersection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpm4r3ncyr/out_small_bed_mintersection.roi OK +397: roi_feature_projection -m intersection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpm4r3ncyr/out_small_gff_mintersection_ss.roi OK +397: roi_feature_projection -m intersection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpm4r3ncyr/out_small_gff_mintersection.roi OK +397: roi_feature_projection -m intersection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpm4r3ncyr/out_small_gtf_mintersection_ss.roi OK +397: roi_feature_projection -m intersection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpm4r3ncyr/out_small_gtf_mintersection.roi OK +397: bam2roi --strand-specific -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/micro_rna_sorted_2l.bam -of /tmp/tmpm4r3ncyr/out_mrna_2l_ss.roi OK +397: bam2roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/micro_rna_sorted_2l.bam -of /tmp/tmpm4r3ncyr/out_mrna_2l.roi OK +397: ============================== +397: total tests: 26 +397: failed tests: 0 +397: successful tests: 26 +397: ============================== +398: Executing test for pair_align +398: ============================= +398: +398: pair_align -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.fa OK +398: pair_align -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.fa OK +398: pair_align -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.fa OK +398: pair_align -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.protein.fa OK +398: pair_align -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.protein.fa OK +398: pair_align -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.protein.fa OK +398: pair_align -m nw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.mnw.fa OK +398: pair_align -m gotoh -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.mgotoh.fa OK +398: pair_align -m sw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.msw.fa OK +398: pair_align -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.mlcs.fa OK +398: pair_align -m nw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.mnw.fa OK +398: pair_align -m gotoh -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.mgotoh.fa OK +398: pair_align -m sw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.msw.fa OK +398: pair_align -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.mlcs.fa OK +398: pair_align -m nw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.mnw.fa OK +398: pair_align -m gotoh -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.mgotoh.fa OK +398: pair_align -m sw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.msw.fa OK +398: pair_align -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.mlcs.fa OK +398: pair_align -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.g-20.fa OK +398: pair_align -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.e-5.fa OK +398: pair_align -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.ms10.fa OK +398: pair_align -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.mm-8.fa OK +398: pair_align -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.g-20.fa OK +398: pair_align -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.e-5.fa OK +398: pair_align -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.ms10.fa OK +398: pair_align -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.mm-8.fa OK +398: pair_align -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.g-20.fa OK +398: pair_align -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.e-5.fa OK +398: pair_align -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.ms10.fa OK +398: pair_align -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.mm-8.fa OK +398: pair_align -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.maVTML200.fa OK +398: pair_align -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.maVTML200.fa OK +398: pair_align -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.maVTML200.fa OK +398: pair_align -lo 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.lo5.fa OK +398: pair_align -hi 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.hi5.fa OK +398: pair_align -lo 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.lo5.fa OK +398: pair_align -hi 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.hi5.fa OK +398: pair_align -lo 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.lo5.fa OK +398: pair_align -hi 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.hi5.fa OK +398: pair_align -c ffff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.cffff.fa OK +398: pair_align -c tttt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.ctttt.fa OK +398: pair_align -c ffft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.cffft.fa OK +398: pair_align -c fftf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.cfftf.fa OK +398: pair_align -c ftff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.cftff.fa OK +398: pair_align -c tfff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.ctfff.fa OK +398: pair_align -c fftt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.cfftt.fa OK +398: pair_align -c fttf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.cfttf.fa OK +398: pair_align -c ttff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.cttff.fa OK +398: pair_align -c tfft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpewrvgtyu/1aab.ctfft.fa OK +398: pair_align -c ffff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.cffff.fa OK +398: pair_align -c tttt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.ctttt.fa OK +398: pair_align -c ffft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.cffft.fa OK +398: pair_align -c fftf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.cfftf.fa OK +398: pair_align -c ftff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.cftff.fa OK +398: pair_align -c tfff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.ctfff.fa OK +398: pair_align -c fftt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.cfftt.fa OK +398: pair_align -c fttf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.cfttf.fa OK +398: pair_align -c ttff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.cttff.fa OK +398: pair_align -c tfft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpewrvgtyu/1ad2.ctfft.fa OK +398: pair_align -c ffff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.cffff.fa OK +389/415 Test #397: app_test_ngs_roi .................................................................. Passed 1.94 sec +394: DELETING TEMP DIR /tmp/tmpfscsnddb +394: Executing test for gustaf +394: =============================== +394: +394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads_mates1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads_mates2.fa -o /tmp/tmpfscsnddb/adeno_modified_reads_joinedMates.fa -rc OK +394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_mates1_gold.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_mates2_gold.fa -o /tmp/tmpfscsnddb/reads_simulated_joined_rc.fa -rc OK +394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_mates1_gold.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_mates2_gold.fa -o /tmp/tmpfscsnddb/reads_simulated_joined.fa OK +394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_joined_gold.fa -o /tmp/tmpfscsnddb/reads_simulated_mates1_rc.fa -o /tmp/tmpfscsnddb/reads_simulated_mates2_rc.fa -rc OK +394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_joined_gold.fa -o /tmp/tmpfscsnddb/reads_simulated_mates1.fa -o /tmp/tmpfscsnddb/reads_simulated_mates2.fa OK +394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -gff /tmp/tmpfscsnddb/st2_l100.gff -vcf /tmp/tmpfscsnddb/st2_l100.vcf OK +394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -gff /tmp/tmpfscsnddb/st1_l30.gff -vcf /tmp/tmpfscsnddb/st1_l30.vcf -st 1 -l 30 OK +394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/stellar.gff -gff /tmp/tmpfscsnddb/st1_l30_m.gff -vcf /tmp/tmpfscsnddb/st1_l30_m.vcf -st 1 OK +394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -gff /tmp/tmpfscsnddb/st1_l30_ith5.gff -vcf /tmp/tmpfscsnddb/st1_l30_ith5.vcf -st 1 -l 30 -ith 5 -bth 5 OK +394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -gff /tmp/tmpfscsnddb/st1_l30_gth3.gff -vcf /tmp/tmpfscsnddb/st1_l30_gth3.vcf -st 1 -l 30 -gth 3 OK +394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads_mates1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads_mates2.fa -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/stellar_joinedMates_l30.gff -gff /tmp/tmpfscsnddb/pairedEnd_st1_l30.gff -vcf /tmp/tmpfscsnddb/pairedEnd_st1_l30.vcf -st 1 -mst 1 -ll 1000 -le 100 -rc OK +394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/read_reference2.fa -gff /tmp/tmpfscsnddb/reference2_st1_l30.gff -vcf /tmp/tmpfscsnddb/reference2_st1_l30.vcf -st 1 -l 30 OK +394: ============================== +394: total tests: 12 +394: failed tests: 0 +394: successful tests: 12 +394: ============================== +390/415 Test #394: app_test_gustaf ................................................................... Passed 2.38 sec +398: pair_align -c tttt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.ctttt.faDELETING TEMP DIR /tmp/tmpewrvgtyu +398: OK +398: pair_align -c ffft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.cffft.fa OK +398: pair_align -c fftf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.cfftf.fa OK +398: pair_align -c ftff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.cftff.fa OK +398: pair_align -c tfff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.ctfff.fa OK +398: pair_align -c fftt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.cfftt.fa OK +398: pair_align -c fttf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.cfttf.fa OK +398: pair_align -c ttff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.cttff.fa OK +398: pair_align -c tfft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpewrvgtyu/2trx.ctfft.fa OK +398: pair_align -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno1.fa -o /tmp/tmpewrvgtyu/adeno1.fa OK +398: pair_align -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno2.fa -o /tmp/tmpewrvgtyu/adeno2.fa OK +398: pair_align -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno3.fa -o /tmp/tmpewrvgtyu/adeno3.fa OK +398: pair_align -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno1-rna.fa -o /tmp/tmpewrvgtyu/adeno1-rna.fa OK +398: pair_align -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno2-rna.fa -o /tmp/tmpewrvgtyu/adeno2-rna.fa OK +398: pair_align -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno3-rna.fa -o /tmp/tmpewrvgtyu/adeno3-rna.fa OK +398: ============================== +398: total tests: 75 +398: failed tests: 0 +398: successful tests: 75 +398: ============================== +391/415 Test #398: app_test_pair_align ............................................................... Passed 2.07 sec +107: StringTestCommon_LessOperator type parameter seqan::String >, unsigned long> > > OK +405: DELETING TEMP DIR /tmp/tmpokpajx5k 405: Executing test for sam2matrix 405: ============================= 405: -405: sam2matrix -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix/tests/ecoli.sam -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix/tests/ehec.sam -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix/tests/ecoli_0.50_ehec_0.50.fq -rf ecoli.fa -rf ehec.fa -o /tmp/tmpwagni2hq/test_sam2matrix.tsv OK +405: sam2matrix -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix/tests/ecoli.sam -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix/tests/ehec.sam -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix/tests/ecoli_0.50_ehec_0.50.fq -rf ecoli.fa -rf ehec.fa -o /tmp/tmpokpajx5k/test_sam2matrix.tsv OK 405: ============================== 405: total tests: 1 405: failed tests: 0 405: successful tests: 1 405: ============================== -385/415 Test #405: app_test_sam2matrix ............................................................... Passed 0.14 sec -404: DELETING TEMP DIR /tmp/tmpv82nldcg +392/415 Test #405: app_test_sam2matrix ............................................................... Passed 3.18 sec +68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK +395: DELETING TEMP DIR /tmp/tmpta5nyhun +395: Executing test for insegt +395: ========================= +395: +395: insegt -ro /tmp/tmpta5nyhun/default_readOutput.gff -ao /tmp/tmpta5nyhun/default_annoOutput.gff -to /tmp/tmpta5nyhun/default_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK +395: insegt -c 2 -ro /tmp/tmpta5nyhun/threshold-count2_readOutput.gff -ao /tmp/tmpta5nyhun/threshold-count2_annoOutput.gff -to /tmp/tmpta5nyhun/threshold-count2_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK +395: insegt -n 3 -ro /tmp/tmpta5nyhun/ntuple3_readOutput.gff -ao /tmp/tmpta5nyhun/ntuple3_annoOutput.gff -to /tmp/tmpta5nyhun/ntuple3_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK +395: insegt -m -ro /tmp/tmpta5nyhun/max-tuple_readOutput.gff -ao /tmp/tmpta5nyhun/max-tuple_annoOutput.gff -to /tmp/tmpta5nyhun/max-tuple_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK +395: insegt -e -ro /tmp/tmpta5nyhun/exact-ntuple_readOutput.gff -ao /tmp/tmpta5nyhun/exact-ntuple_annoOutput.gff -to /tmp/tmpta5nyhun/exact-ntuple_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK +395: ============================== +395: total tests: 5 +395: failed tests: 0 +395: successful tests: 5 +395: ============================== +393/415 Test #395: app_test_insegt ................................................................... Passed 3.93 sec +107: StringTestCommon_LessOperator type parameter seqan::String >, unsigned long> > > OK +414: DELETING TEMP DIR /tmp/tmp2tainni7 +414: Executing test for tree_recomb +414: ============================== +414: +414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmp2tainni7/example1.dot OK +414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp2tainni7/example2.dot OK +414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp2tainni7/example3.dot OK +414: tree_recomb -b nj -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmp2tainni7/example1.nj.dot OK +414: tree_recomb -b min -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmp2tainni7/example1.min.dot OK +414: tree_recomb -b max -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmp2tainni7/example1.max.dot OK +414: tree_recomb -b wavg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmp2tainni7/example1.wavg.dot OK +414: tree_recomb -b nj -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp2tainni7/example2.nj.dot OK +414: tree_recomb -b min -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp2tainni7/example2.min.dot OK +414: tree_recomb -b max -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp2tainni7/example2.max.dot OK +414: tree_recomb -b avg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp2tainni7/example2.avg.dot OK +414: tree_recomb -b wavg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp2tainni7/example2.wavg.dot OK +414: tree_recomb -b nj -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp2tainni7/example3.nj.dot OK +414: tree_recomb -b min -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp2tainni7/example3.min.dot OK +414: tree_recomb -b max -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp2tainni7/example3.max.dot OK +414: tree_recomb -b avg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp2tainni7/example3.avg.dot OK +414: tree_recomb -b wavg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp2tainni7/example3.wavg.dot OK +414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmp2tainni7/example1.dot OK +414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmp2tainni7/example1.newick OK +414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp2tainni7/example2.dot OK +414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp2tainni7/example2.newick OK +414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp2tainni7/example3.dot OK +414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp2tainni7/example3.newick OK +414: ============================== +414: total tests: 23 +414: failed tests: 0 +414: successful tests: 23 +414: ============================== +394/415 Test #414: app_test_tree_recon ............................................................... Passed 4.69 sec +68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +406: DELETING TEMP DIR /tmp/tmpssnjiat0 +406: Executing test for samcat +406: ========================= +406: +406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/samcat /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a1.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a2.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a3.sam -o /tmp/tmpssnjiat0/ex1_merged.sam +406: OK +406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/samcat /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a1.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a2.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a3.sam -o /tmp/tmpssnjiat0/ex1_merged.bam +406: OK +406: ============================== +406: total tests: 2 +406: failed tests: 0 +406: successful tests: 2 +406: ============================== +404: DELETING TEMP DIR /tmp/tmphx7l_gmm 404: Executing test for sak 404: ====================== 404: -404: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -o /tmp/tmpv82nldcg/adeno.all.fa +404: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -o /tmp/tmphx7l_gmm/adeno.all.fa 404: OK -404: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -s 1 -o /tmp/tmpv82nldcg/adeno.seq1.fa +404: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -s 1 -o /tmp/tmphx7l_gmm/adeno.seq1.fa 404: OK -404: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -ss 1-2 -o /tmp/tmpv82nldcg/adeno.seq1-2.fa +404: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -ss 1-2 -o /tmp/tmphx7l_gmm/adeno.seq1-2.fa 404: OK -404: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -s 3 -o /tmp/tmpv82nldcg/adeno.seq3.fa +404: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -s 3 -o /tmp/tmphx7l_gmm/adeno.seq3.fa 404: OK -404: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -sn gi|9626621 -o /tmp/tmpv82nldcg/adeno.sn.fa +404: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -sn gi|9626621 -o /tmp/tmphx7l_gmm/adeno.sn.fa 404: OK -404: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -s 1 -i 5-25 -o /tmp/tmpv82nldcg/adeno.s1i5-25.fa +404: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -s 1 -i 5-25 -o /tmp/tmphx7l_gmm/adeno.s1i5-25.fa 404: OK -404: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -ss 1-2 -i 5-25 -o /tmp/tmpv82nldcg/adeno.s1-2i5-25.fa +404: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -ss 1-2 -i 5-25 -o /tmp/tmphx7l_gmm/adeno.s1-2i5-25.fa 404: OK -404: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -s 1 -rc -o /tmp/tmpv82nldcg/adeno.s1rc.fa +404: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -s 1 -rc -o /tmp/tmphx7l_gmm/adeno.s1rc.fa 404: OK 404: ============================== 404: total tests: 8 404: failed tests: 0 404: successful tests: 8 404: ============================== -67: CSATest_IndexSA type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -386/415 Test #404: app_test_sak ...................................................................... Passed 0.19 sec -415: DELETING TEMP DIR /tmp/tmp936agqjn +395/415 Test #406: app_test_samcat ................................................................... Passed 5.23 sec +396/415 Test #404: app_test_sak ...................................................................... Passed 5.24 sec +107: StringTestCommon_LessOperator type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_LessOperator type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_LessOperator type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_LessOperator type parameter seqan::String > > OK +107: StringTestCommon_LessOperator type parameter seqan::String > > OK +107: StringTestCommon_LessOperator type parameter seqan::String > > OK +107: StringTestCommon_LessOperator type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_LessOperator type parameter seqan::String > OK +107: StringTestCommon_LessOperator type parameter seqan::String > OK +107: StringTestCommon_LessOperator type parameter seqan::String > OK +107: StringTestCommon_LessOperator type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_LessOperator type parameter seqan::String > OK +107: StringTestCommon_LessOperator type parameter seqan::String > OK +107: StringTestCommon_LessOperator type parameter seqan::String > OK +107: StringTestCommon_LessOperator type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_LessOperator type parameter seqan::String > OK +107: StringTestCommon_LessOperator type parameter seqan::String > OK +107: StringTestCommon_LessOperator type parameter seqan::String > OK +107: StringTestCommon_LessOperator type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_LessOperator type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_LessOperator type parameter std::vector, std::allocator > > OK +107: StringTestCommon_LessOperator type parameter std::vector > OK +107: StringTestCommon_LessOperator type parameter std::vector > OK +107: StringTestCommon_LessOperator type parameter std::vector > OK +107: StringTestCommon_LessOperator type parameter std::deque, std::allocator > > OK +107: StringTestCommon_LessOperator type parameter std::deque > OK +107: StringTestCommon_LessOperator type parameter std::deque > OK +107: StringTestCommon_LessOperator type parameter std::deque > OK +107: StringTestCommon_LessOperator type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_LessOperator type parameter std::forward_list > OK +107: StringTestCommon_LessOperator type parameter std::forward_list > OK +107: StringTestCommon_LessOperator type parameter std::forward_list > OK +107: StringTestCommon_LessOperator type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_LessOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_LessOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_LessOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +415: DELETING TEMP DIR /tmp/tmpyg78t40c 415: Executing test for Yara 415: ============================== 415: -415: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/yara_indexer /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara/tests/input/adeno-genome.fa -o /tmp/tmp936agqjn/adeno-genome OK -415: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/yara_mapper /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara/tests/gold/adeno-genome /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara/tests/input/adeno-reads_1.fa -o /tmp/tmp936agqjn/adeno-reads_1.t1.sam --threads 1 OK +415: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/yara_indexer /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara/tests/input/adeno-genome.fa -o /tmp/tmpyg78t40c/adeno-genome OK +415: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/yara_mapper /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara/tests/gold/adeno-genome /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara/tests/input/adeno-reads_1.fa -o /tmp/tmpyg78t40c/adeno-reads_1.t1.sam --threads 1 OK 415: ============================== 415: total tests: 2 415: failed tests: 0 415: successful tests: 2 415: ============================== -66: IndexTest_OpenSave type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -387/415 Test #415: app_test_yara ..................................................................... Passed 0.20 sec -66: ************************************** -66: Total Tests: 28 -66: Skipped: 0 -66: Errors: 0 -66: ************************************** -388/415 Test #66: test_test_index_base .............................................................. Passed 2.34 sec -406: DELETING TEMP DIR /tmp/tmputswcegt -406: Executing test for samcat -406: ========================= -406: -406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/samcat /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a1.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a2.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a3.sam -o /tmp/tmputswcegt/ex1_merged.sam -406: OK -406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/samcat /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a1.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a2.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a3.sam -o /tmp/tmputswcegt/ex1_merged.bam -406: OK -406: ============================== -406: total tests: 2 -406: failed tests: 0 -406: successful tests: 2 -406: ============================== -363: Return code was 0. -363: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/assignment_exact_generous_solution.cpp.stdout", "None". -363: Standard output was as expected. -363: Standard error was as expected. -394: DELETING TEMP DIR /tmp/tmpcfnqbu5d -394: Executing test for gustaf -394: =============================== -394: -394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads_mates1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads_mates2.fa -o /tmp/tmpcfnqbu5d/adeno_modified_reads_joinedMates.fa -rc OK -394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_mates1_gold.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_mates2_gold.fa -o /tmp/tmpcfnqbu5d/reads_simulated_joined_rc.fa -rc OK -394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_mates1_gold.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_mates2_gold.fa -o /tmp/tmpcfnqbu5d/reads_simulated_joined.fa OK -394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_joined_gold.fa -o /tmp/tmpcfnqbu5d/reads_simulated_mates1_rc.fa -o /tmp/tmpcfnqbu5d/reads_simulated_mates2_rc.fa -rc OK -394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_joined_gold.fa -o /tmp/tmpcfnqbu5d/reads_simulated_mates1.fa -o /tmp/tmpcfnqbu5d/reads_simulated_mates2.fa OK -394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -gff /tmp/tmpcfnqbu5d/st2_l100.gff -vcf /tmp/tmpcfnqbu5d/st2_l100.vcf OK -394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -gff /tmp/tmpcfnqbu5d/st1_l30.gff -vcf /tmp/tmpcfnqbu5d/st1_l30.vcf -st 1 -l 30 OK -394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/stellar.gff -gff /tmp/tmpcfnqbu5d/st1_l30_m.gff -vcf /tmp/tmpcfnqbu5d/st1_l30_m.vcf -st 1 OK -394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -gff /tmp/tmpcfnqbu5d/st1_l30_ith5.gff -vcf /tmp/tmpcfnqbu5d/st1_l30_ith5.vcf -st 1 -l 30 -ith 5 -bth 5 OK -394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -gff /tmp/tmpcfnqbu5d/st1_l30_gth3.gff -vcf /tmp/tmpcfnqbu5d/st1_l30_gth3.vcf -st 1 -l 30 -gth 3 OK -394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads_mates1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads_mates2.fa -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/stellar_joinedMates_l30.gff -gff /tmp/tmpcfnqbu5d/pairedEnd_st1_l30.gff -vcf /tmp/tmpcfnqbu5d/pairedEnd_st1_l30.vcf -st 1 -mst 1 -ll 1000 -le 100 -rc OK -394: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/read_reference2.fa -gff /tmp/tmpcfnqbu5d/reference2_st1_l30.gff -vcf /tmp/tmpcfnqbu5d/reference2_st1_l30.vcf -st 1 -l 30 OK -394: ============================== -394: total tests: 12 -394: failed tests: 0 -394: successful tests: 12 -394: ============================== -389/415 Test #363: test_demo_tutorial_sequences_in_depth_assignment_exact_generous_solution .......... Passed 0.56 sec -390/415 Test #394: app_test_gustaf ................................................................... Passed 0.39 sec -391/415 Test #406: app_test_samcat ................................................................... Passed 0.31 sec -414: DELETING TEMP DIR /tmp/tmpay9x8es8 -414: Executing test for tree_recomb -414: ============================== -414: -414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpay9x8es8/example1.dot OK -414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpay9x8es8/example2.dot OK -414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpay9x8es8/example3.dot OK -414: tree_recomb -b nj -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpay9x8es8/example1.nj.dot OK -414: tree_recomb -b min -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpay9x8es8/example1.min.dot OK -414: tree_recomb -b max -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpay9x8es8/example1.max.dot OK -414: tree_recomb -b wavg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpay9x8es8/example1.wavg.dot OK -414: tree_recomb -b nj -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpay9x8es8/example2.nj.dot OK -414: tree_recomb -b min -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpay9x8es8/example2.min.dot OK -414: tree_recomb -b max -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpay9x8es8/example2.max.dot OK -414: tree_recomb -b avg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpay9x8es8/example2.avg.dot OK -414: tree_recomb -b wavg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpay9x8es8/example2.wavg.dot OK -414: tree_recomb -b nj -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpay9x8es8/example3.nj.dot OK -414: tree_recomb -b min -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpay9x8es8/example3.min.dot OK -414: tree_recomb -b max -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpay9x8es8/example3.max.dot OK -414: tree_recomb -b avg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpay9x8es8/example3.avg.dot OK -414: tree_recomb -b wavg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpay9x8es8/example3.wavg.dot OK -414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpay9x8es8/example1.dot OK -414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpay9x8es8/example1.newick OK -414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpay9x8es8/example2.dot OK -414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpay9x8es8/example2.newick OK -414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpay9x8es8/example3.dot OK -414: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpay9x8es8/example3.newick OK -414: ============================== -414: total tests: 23 -414: failed tests: 0 -414: successful tests: 23 -414: ============================== -397: DELETING TEMP DIR /tmp/tmp9i9u6h96 -397: Executing test for roi_intersect -397: ================================ -397: -397: roi_feature_projection -m projection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmp9i9u6h96/out_small_bed_mprojection_ss.roi OK -397: roi_feature_projection -m projection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmp9i9u6h96/out_small_bed_mprojection.roi OK -397: roi_feature_projection -m projection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmp9i9u6h96/out_small_gff_mprojection_ss.roi OK -397: roi_feature_projection -m projection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmp9i9u6h96/out_small_gff_mprojection.roi OK -397: roi_feature_projection -m projection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmp9i9u6h96/out_small_gtf_mprojection_ss.roi OK -397: roi_feature_projection -m projection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmp9i9u6h96/out_small_gtf_mprojection.roi OK -397: roi_feature_projection -m union -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmp9i9u6h96/out_small_bed_munion_ss.roi OK -397: roi_feature_projection -m union -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmp9i9u6h96/out_small_bed_munion.roi OK -397: roi_feature_projection -m union -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmp9i9u6h96/out_small_gff_munion_ss.roi OK -397: roi_feature_projection -m union -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmp9i9u6h96/out_small_gff_munion.roi OK -397: roi_feature_projection -m union -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmp9i9u6h96/out_small_gtf_munion_ss.roi OK -397: roi_feature_projection -m union -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmp9i9u6h96/out_small_gtf_munion.roi OK -397: roi_feature_projection -m difference -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmp9i9u6h96/out_small_bed_mdifference_ss.roi OK -397: roi_feature_projection -m difference -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmp9i9u6h96/out_small_bed_mdifference.roi OK -397: roi_feature_projection -m difference -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmp9i9u6h96/out_small_gff_mdifference_ss.roi OK -397: roi_feature_projection -m difference -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmp9i9u6h96/out_small_gff_mdifference.roi OK -397: roi_feature_projection -m difference -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmp9i9u6h96/out_small_gtf_mdifference_ss.roi OK -397: roi_feature_projection -m difference -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmp9i9u6h96/out_small_gtf_mdifference.roi OK -397: roi_feature_projection -m intersection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmp9i9u6h96/out_small_bed_mintersection_ss.roi OK -397: roi_feature_projection -m intersection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmp9i9u6h96/out_small_bed_mintersection.roi OK -397: roi_feature_projection -m intersection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmp9i9u6h96/out_small_gff_mintersection_ss.roi OK -397: roi_feature_projection -m intersection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmp9i9u6h96/out_small_gff_mintersection.roi OK -397: roi_feature_projection -m intersection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmp9i9u6h96/out_small_gtf_mintersection_ss.roi OK -397: roi_feature_projection -m intersection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmp9i9u6h96/out_small_gtf_mintersection.roi OK -397: bam2roi --strand-specific -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/micro_rna_sorted_2l.bam -of /tmp/tmp9i9u6h96/out_mrna_2l_ss.roi OK -397: bam2roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/micro_rna_sorted_2l.bam -of /tmp/tmp9i9u6h96/out_mrna_2l.roi OK -397: ============================== -397: total tests: 26 -397: failed tests: 0 -397: successful tests: 26 -397: ============================== -392/415 Test #414: app_test_tree_recon ............................................................... Passed 0.34 sec -393/415 Test #397: app_test_ngs_roi .................................................................. Passed 0.44 sec -116: InputStreamTest_Get type parameter std::basic_ifstream > OK -116: InputStreamTest_Eof type parameter std::basic_fstream > OK -116: InputStreamTest_Eof type parameter std::basic_ifstream > OK -116: OutputStreamTest_Open type parameter std::basic_fstream > OK -116: OutputStreamTest_Open type parameter std::basic_ofstream > OK -116: OutputStreamTest_Put type parameter std::basic_fstream > OK -116: OutputStreamTest_Put type parameter std::basic_ofstream > OK -116: InputStreamTest_Tell type parameter std::basic_fstream > OK -116: InputStreamTest_Tell type parameter std::basic_ifstream > OK -116: OutputStreamTest_Tell type parameter std::basic_fstream > OK -116: OutputStreamTest_Tell type parameter std::basic_ofstream > OK -116: ************************************** -116: Total Tests: 213 -116: Skipped: 0 -116: Errors: 0 -116: ************************************** -394/415 Test #116: test_test_stream .................................................................. Passed 2.25 sec -398: Executing test for pair_align -398: ============================= -398: -398: pair_align -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.fa OK -398: pair_align -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.fa OK -398: pair_align -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.fa OK -398: pair_align -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.protein.fa OK -398: pair_align -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.protein.fa OK -398: pair_align -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.protein.fa OK -398: pair_align -m nw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.mnw.fa OK -398: pair_align -m gotoh -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.mgotoh.fa OK -398: pair_align -m sw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.msw.fa OK -398: pair_align -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.mlcs.fa OK -398: pair_align -m nw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.mnw.fa OK -398: pair_align -m gotoh -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.mgotoh.fa OK -398: pair_align -m sw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.msw.fa OK -398: pair_align -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.mlcs.fa OK -398: pair_align -m nw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.mnw.fa OK -398: pair_align -m gotoh -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.mgotoh.fa OK -398: pair_align -m sw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.msw.fa OK -398: pair_align -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.mlcs.fa OK -398: pair_align -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.g-20.fa OK -398: pair_align -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.e-5.fa OK -398: pair_align -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.ms10.fa OK -398: pair_align -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.mm-8.fa OK -398: pair_align -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.g-20.fa OK -398: pair_align -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.e-5.fa OK -398: pair_align -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.ms10.fa OK -398: pair_align -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.mm-8.fa OK -398: pair_align -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.g-20.fa OK -398: pair_align -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.e-5.fa OK -398: pair_align -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.ms10.fa OK -398: pair_align -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.mm-8.fa OK -398: pair_align -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.maVTML200.fa OK -398: pair_align -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.maVTML200.fa OK -398: pair_align -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.maVTML200.fa OK -398: pair_align -lo 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.lo5.fa OK -398: pair_align -hi 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.hi5.fa OK -398: pair_align -lo 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.lo5.fa OK -398: pair_align -hi 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.hi5.fa OK -398: pair_align -lo 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.lo5.fa OK -398: pair_align -hi 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.hi5.fa OK -398: pair_align -c ffff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.cffff.fa OK -398: pair_align -c tttt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.ctttt.fa OK -398: pair_align -c ffft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.cffft.fa OK -398: pair_align -c fftf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.cfftf.fa OK -398: pair_align -c ftff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.cftff.fa OK -398: pair_align -c tfff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.ctfff.fa OK -398: pair_align -c fftt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.cfftt.fa OK -398: pair_align -c fttf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.cfttf.fa OK -398: pair_align -c ttff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.cttff.fa OK -398: pair_align -c tfft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp4bfz0dx0/1aab.ctfft.fa OK -398: pair_align -c ffff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.cffff.fa OK -398: pair_align -c tttt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.ctttt.fa OK -398: pair_align -c ffft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.cffft.fa OK -398: pair_align -c fftf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.cfftf.fa OK -398: pair_align -c ftff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.cftff.fa OK -398: pair_align -c tfff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.ctfff.fa OK -398: pair_align -c fftt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.cfftt.fa OK -398: pair_align -c fttf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.cfttf.fa OK -398: pair_align -c ttff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.cttff.fa OK -398: pair_align -c tfft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp4bfz0dx0/1ad2.ctfft.fa OK -398: pair_align -c ffff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.cffff.fa OK -67: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -67: CSATest_IndexSA type parameter seqan::Index >, seqan::FMIndex > > OK -67: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -67: CSATest_IndexSA type parameter seqan::Index >, seqan::FMIndex > > OK -85: test_parallel_thread_pool_join OK -398: pair_align -c tttt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.ctttt.faDELETING TEMP DIR /tmp/tmp4bfz0dx0 -398: OK -398: pair_align -c ffft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.cffft.fa OK -398: pair_align -c fftf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.cfftf.fa OK -398: pair_align -c ftff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.cftff.fa OK -398: pair_align -c tfff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.ctfff.fa OK -398: pair_align -c fftt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.cfftt.fa OK -398: pair_align -c fttf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.cfttf.fa OK -398: pair_align -c ttff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.cttff.fa OK -398: pair_align -c tfft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp4bfz0dx0/2trx.ctfft.fa OK -398: pair_align -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno1.fa -o /tmp/tmp4bfz0dx0/adeno1.fa OK -398: pair_align -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno2.fa -o /tmp/tmp4bfz0dx0/adeno2.fa OK -398: pair_align -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno3.fa -o /tmp/tmp4bfz0dx0/adeno3.fa OK -398: pair_align -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno1-rna.fa -o /tmp/tmp4bfz0dx0/adeno1-rna.fa OK -398: pair_align -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno2-rna.fa -o /tmp/tmp4bfz0dx0/adeno2-rna.fa OK -398: pair_align -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno3-rna.fa -o /tmp/tmp4bfz0dx0/adeno3-rna.fa OK -398: ============================== -398: total tests: 75 -398: failed tests: 0 -398: successful tests: 75 -398: ============================== -395/415 Test #398: app_test_pair_align ............................................................... Passed 0.71 sec -67: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -67: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -67: CSATest_BeginEnd type parameter seqan::Index >, seqan::FMIndex > > OK -409: DELETING TEMP DIR /tmp/tmpazmitrkb +397/415 Test #415: app_test_yara ..................................................................... Passed 6.25 sec +403: Executing test for razers3 +403: =========================== +403: +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-tc0.razers OK +403: razers3 -tc 0 -ng /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-ng-tc0.razers OK +403: razers3 -tc 0 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-r-tc0.razers OK +403: razers3 -tc 0 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-f-tc0.razers OK +403: razers3 -tc 0 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-i90-tc0.razers OK +403: razers3 -tc 0 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-i91-tc0.razers OK +403: razers3 -tc 0 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-i92-tc0.razers OK +403: razers3 -tc 0 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-i93-tc0.razers OK +403: razers3 -tc 0 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-i94-tc0.razers OK +403: razers3 -tc 0 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-i95-tc0.razers OK +403: razers3 -tc 0 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-i96-tc0.razers OK +403: razers3 -tc 0 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-i97-tc0.razers OK +403: razers3 -tc 0 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-i98-tc0.razers OK +403: razers3 -tc 0 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-i99-tc0.razers OK +403: razers3 -tc 0 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-i100-tc0.razers OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-of0-tc0.razers OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-of1-tc0.fa OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-of2-tc0.eland OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-of3-tc0.gff OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-of4-tc0.sam OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-of5-tc0.afg OK +403: razers3 -tc 0 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-so0-tc0.razers OK +403: razers3 -tc 0 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1joq201_/se-adeno-reads36_1-so1-tc0.razers OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-tc0.razers OK +403: razers3 -tc 0 -ng /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-ng-tc0.razers OK +403: razers3 -tc 0 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-r-tc0.razers OK +403: razers3 -tc 0 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-f-tc0.razers OK +403: razers3 -tc 0 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-i90-tc0.razers OK +403: razers3 -tc 0 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-i91-tc0.razers OK +403: razers3 -tc 0 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-i92-tc0.razers OK +403: razers3 -tc 0 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-i93-tc0.razers OK +403: razers3 -tc 0 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-i94-tc0.razers OK +403: razers3 -tc 0 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-i95-tc0.razers OK +403: razers3 -tc 0 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-i96-tc0.razers OK +68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +68: ************************************** +68: Total Tests: 12 +68: Skipped: 0 +68: Errors: 0 +68: ************************************** +398/415 Test #68: test_test_index_bifm .............................................................. Passed 11.18 sec +408: Executing test for seqan_tcoffee +408: ================================ +408: +408: seqan_tcoffee -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.fasta OK +408: seqan_tcoffee -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.fasta OK +408: seqan_tcoffee -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.fasta OK +408: seqan_tcoffee -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.protein.fasta OK +408: seqan_tcoffee -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.protein.fasta OK +408: seqan_tcoffee -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.protein.fasta OK +408: seqan_tcoffee -m global -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.mglobal.fasta OK +408: seqan_tcoffee -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.mlocal.fasta OK +408: seqan_tcoffee -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.moverlap.fasta OK +408: seqan_tcoffee -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.mlcs.fasta OK +408: seqan_tcoffee -m global -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.mglobal.mlocal.fasta OK +408: seqan_tcoffee -m local -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.mlocal.moverlap.fasta OK +408: seqan_tcoffee -m global -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.mglobal.fasta OK +408: seqan_tcoffee -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.mlocal.fasta OK +408: seqan_tcoffee -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.moverlap.fasta OK +408: seqan_tcoffee -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.mlcs.fasta OK +408: seqan_tcoffee -m global -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.mglobal.mlocal.fasta OK +408: seqan_tcoffee -m local -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.mlocal.moverlap.fasta OK +408: seqan_tcoffee -m global -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.mglobal.fasta OK +408: seqan_tcoffee -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.mlocal.fasta OK +408: seqan_tcoffee -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.moverlap.fasta OK +408: seqan_tcoffee -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.mlcs.fasta OK +408: seqan_tcoffee -m global -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.mglobal.mlocal.fasta OK +408: seqan_tcoffee -m local -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.mlocal.moverlap.fasta OK +408: seqan_tcoffee -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.g-20.fasta OK +408: seqan_tcoffee -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.e-5.fasta OK +408: seqan_tcoffee -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.ms10.fasta OK +408: seqan_tcoffee -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.mm-8.fasta OK +408: seqan_tcoffee -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.g-20.fasta OK +408: seqan_tcoffee -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.e-5.fasta OK +408: seqan_tcoffee -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.ms10.fasta OK +408: seqan_tcoffee -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.mm-8.fasta OK +408: seqan_tcoffee -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.g-20.fasta OK +408: seqan_tcoffee -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.e-5.fasta OK +408: seqan_tcoffee -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.ms10.fasta OK +408: seqan_tcoffee -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.mm-8.fasta OK +408: seqan_tcoffee -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.maVTML200.fasta OK +408: seqan_tcoffee -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.maVTML200.fasta OK +408: seqan_tcoffee -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.maVTML200.fasta OK +408: seqan_tcoffee -u /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.newick -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.u.fasta OK +408: seqan_tcoffee -u /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.newick -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.u.fasta OK +408: seqan_tcoffee -u /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.newick -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.u.fasta OK +408: seqan_tcoffee -b nj -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.bnj.fasta OK +408: seqan_tcoffee -b min -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.bmin.fasta OK +408: seqan_tcoffee -b max -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.bmax.fasta OK +408: seqan_tcoffee -b avg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.bavg.fasta OK +408: seqan_tcoffee -b wavg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp1a6ufnoc/1aab.bwavg.fasta OK +408: seqan_tcoffee -b nj -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.bnj.fasta OK +408: seqan_tcoffee -b min -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.bmin.fasta OK +408: seqan_tcoffee -b max -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.bmax.fasta OK +408: seqan_tcoffee -b avg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.bavg.fasta OK +408: seqan_tcoffee -b wavg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp1a6ufnoc/1ad2.bwavg.fasta OK +408: seqan_tcoffee -b nj -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.bnj.fasta OK +409: DELETING TEMP DIR /tmp/tmpjtty996l 409: Executing test for seqcons2 409: =========================== 409: -409: seqcons2 -m overlap_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oc /tmp/tmpazmitrkb/alns1.overlap_consensus.fa -oa /tmp/tmpazmitrkb/alns1.overlap_consensus.sam OK -409: seqcons2 -m nop -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oc /tmp/tmpazmitrkb/alns1.nop.fa -oa /tmp/tmpazmitrkb/alns1.nop.sam OK -409: seqcons2 -m overlap_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpazmitrkb/alns1.overlap_consensus.sam -oc /tmp/tmpazmitrkb/alns1.overlap_consensus.fa OK -409: seqcons2 -m pos_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpazmitrkb/alns1.pos_consensus.sam -oc /tmp/tmpazmitrkb/alns1.pos_consensus.fa OK -409: seqcons2 -m contig_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpazmitrkb/alns1.contig_consensus.sam -oc /tmp/tmpazmitrkb/alns1.contig_consensus.fa OK -409: seqcons2 -m realign -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpazmitrkb/alns1.realign.sam -oc /tmp/tmpazmitrkb/alns1.realign.fa OK -409: seqcons2 -m nop -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpazmitrkb/alns1.nop.sam -oc /tmp/tmpazmitrkb/alns1.nop.fa OK -409: seqcons2 -m overlap_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpazmitrkb/alns1.overlap_consensus.txt OK -409: seqcons2 -m pos_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpazmitrkb/alns1.pos_consensus.txt OK -409: seqcons2 -m contig_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpazmitrkb/alns1.contig_consensus.txt OK -409: seqcons2 -m realign -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpazmitrkb/alns1.realign.txt OK -409: seqcons2 -m nop -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpazmitrkb/alns1.nop.txt OK -409: seqcons2 -m align_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/seqs2.fa -oa /tmp/tmpazmitrkb/seqs2.align_consensus.sam -oc /tmp/tmpazmitrkb/seqs2.align_consensus.fa OK -409: seqcons2 -m align_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/seqs2.fa -oa /tmp/tmpazmitrkb/seqs2.align_consensus.txt OK +409: seqcons2 -m overlap_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oc /tmp/tmpjtty996l/alns1.overlap_consensus.fa -oa /tmp/tmpjtty996l/alns1.overlap_consensus.sam OK +409: seqcons2 -m nop -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oc /tmp/tmpjtty996l/alns1.nop.fa -oa /tmp/tmpjtty996l/alns1.nop.sam OK +409: seqcons2 -m overlap_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpjtty996l/alns1.overlap_consensus.sam -oc /tmp/tmpjtty996l/alns1.overlap_consensus.fa OK +409: seqcons2 -m pos_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpjtty996l/alns1.pos_consensus.sam -oc /tmp/tmpjtty996l/alns1.pos_consensus.fa OK +409: seqcons2 -m contig_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpjtty996l/alns1.contig_consensus.sam -oc /tmp/tmpjtty996l/alns1.contig_consensus.fa OK +409: seqcons2 -m realign -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpjtty996l/alns1.realign.sam -oc /tmp/tmpjtty996l/alns1.realign.fa OK +409: seqcons2 -m nop -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpjtty996l/alns1.nop.sam -oc /tmp/tmpjtty996l/alns1.nop.fa OK +409: seqcons2 -m overlap_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpjtty996l/alns1.overlap_consensus.txt OK +409: seqcons2 -m pos_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpjtty996l/alns1.pos_consensus.txt OK +409: seqcons2 -m contig_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpjtty996l/alns1.contig_consensus.txt OK +409: seqcons2 -m realign -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpjtty996l/alns1.realign.txt OK +409: seqcons2 -m nop -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpjtty996l/alns1.nop.txt OK +409: seqcons2 -m align_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/seqs2.fa -oa /tmp/tmpjtty996l/seqs2.align_consensus.sam -oc /tmp/tmpjtty996l/seqs2.align_consensus.fa OK +409: seqcons2 -m align_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/seqs2.fa -oa /tmp/tmpjtty996l/seqs2.align_consensus.txt OK 409: ============================== 409: total tests: 14 409: failed tests: 0 409: successful tests: 14 409: ============================== -396/415 Test #409: app_test_seqcons2 ................................................................. Passed 1.00 sec -67: CSATest_BeginEnd type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -410: DELETING TEMP DIR /tmp/tmpsb9nehwe +399/415 Test #409: app_test_seqcons2 ................................................................. Passed 6.88 sec +402: Executing test for razers3 +402: =========================== +402: +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-tc1.razers OK +402: razers3 -tc 1 -ng /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-ng-tc1.razers OK +402: razers3 -tc 1 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-r-tc1.razers OK +402: razers3 -tc 1 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-f-tc1.razers OK +402: razers3 -tc 1 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-i90-tc1.razers OK +402: razers3 -tc 1 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-i91-tc1.razers OK +402: razers3 -tc 1 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-i92-tc1.razers OK +402: razers3 -tc 1 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-i93-tc1.razers OK +402: razers3 -tc 1 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-i94-tc1.razers OK +402: razers3 -tc 1 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-i95-tc1.razers OK +402: razers3 -tc 1 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-i96-tc1.razers OK +402: razers3 -tc 1 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-i97-tc1.razers OK +402: razers3 -tc 1 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-i98-tc1.razers OK +402: razers3 -tc 1 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-i99-tc1.razers OK +402: razers3 -tc 1 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-i100-tc1.razers OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-of0-tc1.razers OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-of1-tc1.fa OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-of2-tc1.eland OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-of3-tc1.gff OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-of4-tc1.sam OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-of5-tc1.afg OK +402: razers3 -tc 1 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-so0-tc1.razers OK +402: razers3 -tc 1 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads36_1-so1-tc1.razers OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-tc1.razers OK +402: razers3 -tc 1 -ng /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-ng-tc1.razers OK +402: razers3 -tc 1 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-r-tc1.razers OK +402: razers3 -tc 1 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-f-tc1.razers OK +402: razers3 -tc 1 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-i90-tc1.razers OK +402: razers3 -tc 1 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-i91-tc1.razers OK +402: razers3 -tc 1 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-i92-tc1.razers OK +402: razers3 -tc 1 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-i93-tc1.razers OK +402: razers3 -tc 1 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-i94-tc1.razers OK +402: razers3 -tc 1 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-i95-tc1.razers OK +402: razers3 -tc 1 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-i96-tc1.razers OK +410: DELETING TEMP DIR /tmp/tmp2s43q157 410: Executing test for sgip 410: ========================= 410: @@ -311668,715 +310417,2002 @@ 410: failed tests: 0 410: successful tests: 9 410: ============================== -397/415 Test #410: app_test_sgip ..................................................................... Passed 1.34 sec -67: CSATest_BeginEnd type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK -408: Executing test for seqan_tcoffee -408: ================================ -408: -408: seqan_tcoffee -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.fasta OK -408: seqan_tcoffee -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.fasta OK -408: seqan_tcoffee -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.fasta OK -408: seqan_tcoffee -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.protein.fasta OK -408: seqan_tcoffee -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.protein.fasta OK -408: seqan_tcoffee -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.protein.fasta OK -408: seqan_tcoffee -m global -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.mglobal.fasta OK -408: seqan_tcoffee -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.mlocal.fasta OK -408: seqan_tcoffee -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.moverlap.fasta OK -408: seqan_tcoffee -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.mlcs.fasta OK -408: seqan_tcoffee -m global -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.mglobal.mlocal.fasta OK -408: seqan_tcoffee -m local -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.mlocal.moverlap.fasta OK -408: seqan_tcoffee -m global -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.mglobal.fasta OK -408: seqan_tcoffee -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.mlocal.fasta OK -408: seqan_tcoffee -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.moverlap.fasta OK -408: seqan_tcoffee -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.mlcs.fasta OK -408: seqan_tcoffee -m global -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.mglobal.mlocal.fasta OK -408: seqan_tcoffee -m local -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.mlocal.moverlap.fasta OK -408: seqan_tcoffee -m global -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.mglobal.fasta OK -408: seqan_tcoffee -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.mlocal.fasta OK -408: seqan_tcoffee -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.moverlap.fasta OK -408: seqan_tcoffee -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.mlcs.fasta OK -408: seqan_tcoffee -m global -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.mglobal.mlocal.fasta OK -408: seqan_tcoffee -m local -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.mlocal.moverlap.fasta OK -408: seqan_tcoffee -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.g-20.fasta OK -408: seqan_tcoffee -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.e-5.fasta OK -408: seqan_tcoffee -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.ms10.fasta OK -408: seqan_tcoffee -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.mm-8.fasta OK -408: seqan_tcoffee -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.g-20.fasta OK -408: seqan_tcoffee -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.e-5.fasta OK -408: seqan_tcoffee -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.ms10.fasta OK -408: seqan_tcoffee -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.mm-8.fasta OK -408: seqan_tcoffee -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.g-20.fasta OK -408: seqan_tcoffee -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.e-5.fasta OK -408: seqan_tcoffee -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.ms10.fasta OK -408: seqan_tcoffee -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.mm-8.fasta OK -408: seqan_tcoffee -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.maVTML200.fasta OK -408: seqan_tcoffee -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.maVTML200.fasta OK -408: seqan_tcoffee -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.maVTML200.fasta OK -408: seqan_tcoffee -u /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.newick -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.u.fasta OK -408: seqan_tcoffee -u /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.newick -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.u.fasta OK -408: seqan_tcoffee -u /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.newick -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.u.fasta OK -408: seqan_tcoffee -b nj -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.bnj.fasta OK -408: seqan_tcoffee -b min -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.bmin.fasta OK -408: seqan_tcoffee -b max -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.bmax.fasta OK -408: seqan_tcoffee -b avg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.bavg.fasta OK -408: seqan_tcoffee -b wavg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmp2bh_1cir/1aab.bwavg.fasta OK -408: seqan_tcoffee -b nj -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.bnj.fasta OK -408: seqan_tcoffee -b min -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.bmin.fasta OK -408: seqan_tcoffee -b max -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.bmax.fasta OK -408: seqan_tcoffee -b avg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.bavg.fasta OK -408: seqan_tcoffee -b wavg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmp2bh_1cir/1ad2.bwavg.fasta OK -408: seqan_tcoffee -b nj -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.bnj.fasta OK -67: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -67: CSATest_BeginEnd type parameter seqan::Index >, seqan::FMIndex > > OK -67: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -67: CSATest_BeginEnd type parameter seqan::Index >, seqan::FMIndex > > OK -402: Executing test for razers3 -402: =========================== -402: -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-tc1.razers OK -402: razers3 -tc 1 -ng /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-ng-tc1.razers OK -402: razers3 -tc 1 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-r-tc1.razers OK -402: razers3 -tc 1 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-f-tc1.razers OK -402: razers3 -tc 1 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-i90-tc1.razers OK -402: razers3 -tc 1 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-i91-tc1.razers OK -402: razers3 -tc 1 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-i92-tc1.razers OK -402: razers3 -tc 1 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-i93-tc1.razers OK -402: razers3 -tc 1 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-i94-tc1.razers OK -402: razers3 -tc 1 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-i95-tc1.razers OK -402: razers3 -tc 1 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-i96-tc1.razers OK -402: razers3 -tc 1 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-i97-tc1.razers OK -402: razers3 -tc 1 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-i98-tc1.razers OK -402: razers3 -tc 1 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-i99-tc1.razers OK -402: razers3 -tc 1 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-i100-tc1.razers OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-of0-tc1.razers OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-of1-tc1.fa OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-of2-tc1.eland OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-of3-tc1.gff OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-of4-tc1.sam OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-of5-tc1.afg OK -402: razers3 -tc 1 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-so0-tc1.razers OK -402: razers3 -tc 1 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmppltaodx8/se-adeno-reads36_1-so1-tc1.razers OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-tc1.razers OK -402: razers3 -tc 1 -ng /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-ng-tc1.razers OK -402: razers3 -tc 1 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-r-tc1.razers OK -402: razers3 -tc 1 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-f-tc1.razers OK -402: razers3 -tc 1 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-i90-tc1.razers OK -402: razers3 -tc 1 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-i91-tc1.razers OK -402: razers3 -tc 1 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-i92-tc1.razers OK -402: razers3 -tc 1 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-i93-tc1.razers OK -402: razers3 -tc 1 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-i94-tc1.razers OK -402: razers3 -tc 1 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-i95-tc1.razers OK -402: razers3 -tc 1 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-i96-tc1.razers OK -403: Executing test for razers3 -403: =========================== -403: -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-tc0.razers OK -403: razers3 -tc 0 -ng /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-ng-tc0.razers OK -403: razers3 -tc 0 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-r-tc0.razers OK -403: razers3 -tc 0 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-f-tc0.razers OK -403: razers3 -tc 0 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-i90-tc0.razers OK -403: razers3 -tc 0 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-i91-tc0.razers OK -403: razers3 -tc 0 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-i92-tc0.razers OK -403: razers3 -tc 0 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-i93-tc0.razers OK -403: razers3 -tc 0 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-i94-tc0.razers OK -403: razers3 -tc 0 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-i95-tc0.razers OK -403: razers3 -tc 0 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-i96-tc0.razers OK -403: razers3 -tc 0 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-i97-tc0.razers OK -403: razers3 -tc 0 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-i98-tc0.razers OK -403: razers3 -tc 0 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-i99-tc0.razers OK -403: razers3 -tc 0 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-i100-tc0.razers OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-of0-tc0.razers OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-of1-tc0.fa OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-of2-tc0.eland OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-of3-tc0.gff OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-of4-tc0.sam OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-of5-tc0.afg OK -403: razers3 -tc 0 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-so0-tc0.razers OK -403: razers3 -tc 0 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads36_1-so1-tc0.razers OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-tc0.razers OK -403: razers3 -tc 0 -ng /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-ng-tc0.razers OK -403: razers3 -tc 0 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-r-tc0.razers OK -403: razers3 -tc 0 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-f-tc0.razers OK -403: razers3 -tc 0 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-i90-tc0.razers OK -403: razers3 -tc 0 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-i91-tc0.razers OK -403: razers3 -tc 0 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-i92-tc0.razers OK -403: razers3 -tc 0 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-i93-tc0.razers OK -403: razers3 -tc 0 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-i94-tc0.razers OK -403: razers3 -tc 0 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-i95-tc0.razers OK -403: razers3 -tc 0 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-i96-tc0.razers OK -67: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -67: ************************************** -67: Total Tests: 27 -67: Skipped: 0 -67: Errors: 0 -67: ************************************** -398/415 Test #67: test_test_index_fm ................................................................ Passed 4.24 sec -408: seqan_tcoffee -b min -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.bmin.fastaDELETING TEMP DIR /tmp/tmp2bh_1cir +400/415 Test #410: app_test_sgip ..................................................................... Passed 7.25 sec +107: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +408: seqan_tcoffee -b min -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.bmin.fastaDELETING TEMP DIR /tmp/tmp1a6ufnoc 408: OK -408: seqan_tcoffee -b max -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.bmax.fasta OK -408: seqan_tcoffee -b avg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.bavg.fasta OK -408: seqan_tcoffee -b wavg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp2bh_1cir/2trx.bwavg.fasta OK +408: seqan_tcoffee -b max -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.bmax.fasta OK +408: seqan_tcoffee -b avg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.bavg.fasta OK +408: seqan_tcoffee -b wavg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmp1a6ufnoc/2trx.bwavg.fasta OK 408: seqan_tcoffee -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fasta OK 408: seqan_tcoffee -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fasta OK 408: seqan_tcoffee -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fasta OK -408: seqan_tcoffee -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno2.fa -o /tmp/tmp2bh_1cir/adeno2.fasta OK -408: seqan_tcoffee -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno3.fa -o /tmp/tmp2bh_1cir/adeno3.fasta OK -408: seqan_tcoffee -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno4.fa -o /tmp/tmp2bh_1cir/adeno4.fasta OK -408: seqan_tcoffee -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno2-rna.fa -o /tmp/tmp2bh_1cir/adeno2-rna.fasta OK -408: seqan_tcoffee -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno3-rna.fa -o /tmp/tmp2bh_1cir/adeno3-rna.fasta OK -408: seqan_tcoffee -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno4-rna.fa -o /tmp/tmp2bh_1cir/adeno4-rna.fasta OK +408: seqan_tcoffee -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno2.fa -o /tmp/tmp1a6ufnoc/adeno2.fasta OK +408: seqan_tcoffee -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno3.fa -o /tmp/tmp1a6ufnoc/adeno3.fasta OK +408: seqan_tcoffee -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno4.fa -o /tmp/tmp1a6ufnoc/adeno4.fasta OK +408: seqan_tcoffee -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno2-rna.fa -o /tmp/tmp1a6ufnoc/adeno2-rna.fasta OK +408: seqan_tcoffee -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno3-rna.fa -o /tmp/tmp1a6ufnoc/adeno3-rna.fasta OK +408: seqan_tcoffee -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno4-rna.fa -o /tmp/tmp1a6ufnoc/adeno4-rna.fasta OK 408: ============================== 408: total tests: 66 408: failed tests: 0 408: successful tests: 66 408: ============================== -399/415 Test #408: app_test_seqan_tcoffee ............................................................ Passed 2.21 sec -85: test_parallel_thread_pool_destruct OK -85: test_parallel_enumerable_thread_local_construct OK -85: test_parallel_enumerable_thread_local_local OK -85: test_parallel_enumerable_thread_local_enumerate OK -85: test_parallel_enumerable_thread_local_combine_unary OK -85: test_parallel_enumerable_thread_local_combine_binary OK -85: ************************************** -85: Total Tests: 29 -85: Skipped: 0 -85: Errors: 0 -85: ************************************** -400/415 Test #85: test_test_parallel ................................................................ Passed 4.59 sec -412: Executing test for splazers -412: ========================= -412: -412: splazers /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_default.out OK -412: splazers -sm 16 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml16_ep0_es0.out OK -412: splazers -sm 16 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml16_ep0_es1.out OK -412: splazers -sm 16 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml16_ep0_es2.out OK -412: splazers -sm 16 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml16_ep1_es0.out OK -412: splazers -sm 16 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml16_ep1_es1.out OK -412: splazers -sm 16 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml16_ep1_es2.out OK -412: splazers -sm 17 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml17_ep0_es0.out OK -412: splazers -sm 17 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml17_ep0_es1.out OK -412: splazers -sm 17 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml17_ep0_es2.out OK -412: splazers -sm 17 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml17_ep1_es0.out OK -412: splazers -sm 17 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml17_ep1_es1.out OK -412: splazers -sm 17 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml17_ep1_es2.out OK -412: splazers -sm 18 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml18_ep0_es0.out OK -412: splazers -sm 18 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml18_ep0_es1.out OK -412: splazers -sm 18 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml18_ep0_es2.out OK -412: splazers -sm 18 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml18_ep1_es0.out OK -412: splazers -sm 18 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml18_ep1_es1.out OK -412: splazers -sm 18 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml18_ep1_es2.out OK -412: splazers -sm 19 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml19_ep0_es0.out OK -412: splazers -sm 19 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml19_ep0_es1.out OK -412: splazers -sm 19 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml19_ep0_es2.out OK -412: splazers -sm 19 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml19_ep1_es0.out OK -412: splazers -sm 19 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml19_ep1_es1.out OK -412: splazers -sm 19 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml19_ep1_es2.out OK -412: splazers -sm 20 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20_ep0_es0.out OK -412: splazers -sm 20 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20_ep0_es1.out OK -412: splazers -sm 20 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20_ep0_es2.out OK -412: splazers -sm 20 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20_ep1_es0.out OK -412: splazers -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20_ep1_es1.out OK -412: splazers -sm 20 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20_ep1_es2.out OK -412: splazers -sm 21 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml21_ep0_es0.out OK +401/415 Test #408: app_test_seqan_tcoffee ............................................................ Passed 8.11 sec 401: Executing test for razers 401: ========================= 401: -401: razers --low-memory /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1.razers OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id.razers OK -401: razers --low-memory -id -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-r.razers OK -401: razers --low-memory -id -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-f.razers OK -401: razers --low-memory -id -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-i90.razers OK -401: razers --low-memory -id -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-i91.razers OK -401: razers --low-memory -id -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-i92.razers OK -401: razers --low-memory -id -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-i93.razers OK -401: razers --low-memory -id -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-i94.razers OK -401: razers --low-memory -id -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-i95.razers OK -401: razers --low-memory -id -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-i96.razers OK -401: razers --low-memory -id -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-i97.razers OK -401: razers --low-memory -id -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-i98.razers OK -401: razers --low-memory -id -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-i99.razers OK -401: razers --low-memory -id -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-i100.razers OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-of0.razers OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-of1.fa OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-of2.eland OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-of3.gff OK -401: razers --low-memory -id -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-so0.razers OK -401: razers --low-memory -id -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads36_1-id-so1.razers OK -401: razers --low-memory /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1.razers OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id.razers OK -401: razers --low-memory -id -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-r.razers OK -401: razers --low-memory -id -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-f.razers OK -401: razers --low-memory -id -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-i90.razers OK -401: razers --low-memory -id -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-i91.razers OK -401: razers --low-memory -id -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-i92.razers OK -401: razers --low-memory -id -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-i93.razers OK -401: razers --low-memory -id -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-i94.razers OK -401: razers --low-memory -id -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-i95.razers OK -401: razers --low-memory -id -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-i96.razers OK -401: razers --low-memory -id -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-i97.razers OK -402: razers3 -tc 1 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-i97-tc1.razers OK -402: razers3 -tc 1 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-i98-tc1.razers OK -402: razers3 -tc 1 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-i99-tc1.razers OK -402: razers3 -tc 1 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-i100-tc1.razers OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-of0-tc1.razers OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-of1-tc1.fa OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-of2-tc1.eland OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-of3-tc1.gff OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-of4-tc1.sam OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-of5-tc1.afg OK -402: razers3 -tc 1 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-so0-tc1.razers OK -402: razers3 -tc 1 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmppltaodx8/se-adeno-reads100_1-so1-tc1.razers OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-tc1.razers OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-tc1.razers OK -402: razers3 -tc 1 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-r-tc1.razers OK -402: razers3 -tc 1 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-f-tc1.razers OK -402: razers3 -tc 1 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-i90-tc1.razers OK -402: razers3 -tc 1 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-i91-tc1.razers OK -402: razers3 -tc 1 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-i92-tc1.razers OK -402: razers3 -tc 1 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-i93-tc1.razers OK -402: razers3 -tc 1 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-i94-tc1.razers OK -402: razers3 -tc 1 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-i95-tc1.razers OK -402: razers3 -tc 1 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-i96-tc1.razers OK -402: razers3 -tc 1 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-i97-tc1.razers OK -402: razers3 -tc 1 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-i98-tc1.razers OK -402: razers3 -tc 1 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-i99-tc1.razers OK -402: razers3 -tc 1 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-i100-tc1.razers OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-of0-tc1.razers OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-of1-tc1.fa OK -403: razers3 -tc 0 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-i97-tc0.razers OK -403: razers3 -tc 0 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-i98-tc0.razers OK -403: razers3 -tc 0 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-i99-tc0.razers OK -403: razers3 -tc 0 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-i100-tc0.razers OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-of0-tc0.razers OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-of1-tc0.fa OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-of2-tc0.eland OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-of3-tc0.gff OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-of4-tc0.sam OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-of5-tc0.afg OK -403: razers3 -tc 0 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-so0-tc0.razers OK -403: razers3 -tc 0 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp0iopo4kx/se-adeno-reads100_1-so1-tc0.razers OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-tc0.razers OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-tc0.razers OK -403: razers3 -tc 0 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-r-tc0.razers OK -403: razers3 -tc 0 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-f-tc0.razers OK -403: razers3 -tc 0 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-i90-tc0.razers OK -403: razers3 -tc 0 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-i91-tc0.razers OK -403: razers3 -tc 0 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-i92-tc0.razers OK -403: razers3 -tc 0 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-i93-tc0.razers OK -403: razers3 -tc 0 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-i94-tc0.razers OK -403: razers3 -tc 0 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-i95-tc0.razers OK -403: razers3 -tc 0 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-i96-tc0.razers OK -403: razers3 -tc 0 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-i97-tc0.razers OK -403: razers3 -tc 0 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-i98-tc0.razers OK -403: razers3 -tc 0 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-i99-tc0.razers OK -403: razers3 -tc 0 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-i100-tc0.razers OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-of0-tc0.razers OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-of1-tc0.fa OK -68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-of2-tc1.eland OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-of3-tc1.gff OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-of4-tc1.sam OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-of5-tc1.afg OK -402: razers3 -tc 1 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-so0-tc1.razers OK -402: razers3 -tc 1 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads36_2-so1-tc1.razers OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-tc1.razers OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-tc1.razers OK -402: razers3 -tc 1 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-r-tc1.razers OK -402: razers3 -tc 1 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-f-tc1.razers OK -402: razers3 -tc 1 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-i90-tc1.razers OK -402: razers3 -tc 1 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-i91-tc1.razers OK -402: razers3 -tc 1 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-i92-tc1.razers OK -402: razers3 -tc 1 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-i93-tc1.razers OK -402: razers3 -tc 1 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-i94-tc1.razers OK -402: razers3 -tc 1 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-i95-tc1.razers OK -402: razers3 -tc 1 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-i96-tc1.razers OK -402: razers3 -tc 1 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-i97-tc1.razers OK -402: razers3 -tc 1 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-i98-tc1.razers OK -402: razers3 -tc 1 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-i99-tc1.razers OK -402: razers3 -tc 1 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-i100-tc1.razers OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-of0-tc1.razers OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-of1-tc1.fa OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-of2-tc1.eland OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-of3-tc1.gff OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-of4-tc1.sam OK -402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-of5-tc1.afgDELETING TEMP DIR /tmp/tmppltaodx8 -402: OK -402: razers3 -tc 1 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-so0-tc1.razers OK -402: razers3 -tc 1 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmppltaodx8/pe-adeno-reads100_2-so1-tc1.razers OK -402: ============================== -402: total tests: 92 -402: failed tests: 0 -402: successful tests: 92 -402: ============================== -401/415 Test #402: app_test_razers3 .................................................................. Passed 5.48 sec -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-of2-tc0.eland OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-of3-tc0.gff OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-of4-tc0.sam OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-of5-tc0.afg OK -403: razers3 -tc 0 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-so0-tc0.razers OK -403: razers3 -tc 0 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads36_2-so1-tc0.razers OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-tc0.razers OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-tc0.razers OK -403: razers3 -tc 0 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-r-tc0.razers OK -403: razers3 -tc 0 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-f-tc0.razers OK -403: razers3 -tc 0 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-i90-tc0.razers OK -403: razers3 -tc 0 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-i91-tc0.razers OK -403: razers3 -tc 0 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-i92-tc0.razers OK -403: razers3 -tc 0 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-i93-tc0.razers OK -403: razers3 -tc 0 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-i94-tc0.razers OK -403: razers3 -tc 0 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-i95-tc0.razers OK -403: razers3 -tc 0 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-i96-tc0.razers OK -403: razers3 -tc 0 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-i97-tc0.razers OK -403: razers3 -tc 0 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-i98-tc0.razers OK -403: razers3 -tc 0 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-i99-tc0.razers OK -403: razers3 -tc 0 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-i100-tc0.razers OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-of0-tc0.razers OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-of1-tc0.fa OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-of2-tc0.eland OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-of3-tc0.gff OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-of4-tc0.sam OK -403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-of5-tc0.afgDELETING TEMP DIR /tmp/tmp0iopo4kx +401: razers --low-memory /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1.razers OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id.razers OK +401: razers --low-memory -id -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-r.razers OK +401: razers --low-memory -id -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-f.razers OK +401: razers --low-memory -id -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-i90.razers OK +401: razers --low-memory -id -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-i91.razers OK +401: razers --low-memory -id -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-i92.razers OK +401: razers --low-memory -id -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-i93.razers OK +401: razers --low-memory -id -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-i94.razers OK +401: razers --low-memory -id -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-i95.razers OK +401: razers --low-memory -id -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-i96.razers OK +401: razers --low-memory -id -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-i97.razers OK +401: razers --low-memory -id -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-i98.razers OK +401: razers --low-memory -id -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-i99.razers OK +401: razers --low-memory -id -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-i100.razers OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-of0.razers OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-of1.fa OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-of2.eland OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-of3.gff OK +401: razers --low-memory -id -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-so0.razers OK +401: razers --low-memory -id -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads36_1-id-so1.razers OK +401: razers --low-memory /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1.razers OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id.razers OK +401: razers --low-memory -id -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-r.razers OK +401: razers --low-memory -id -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-f.razers OK +401: razers --low-memory -id -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-i90.razers OK +401: razers --low-memory -id -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-i91.razers OK +401: razers --low-memory -id -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-i92.razers OK +401: razers --low-memory -id -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-i93.razers OK +401: razers --low-memory -id -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-i94.razers OK +401: razers --low-memory -id -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-i95.razers OK +401: razers --low-memory -id -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-i96.razers OK +401: razers --low-memory -id -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-i97.razers OK +79: test_journaled_string_tree_find_shiftand OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String >, unsigned long> > > OK +412: Executing test for splazers +412: ========================= +412: +412: splazers /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_default.out OK +412: splazers -sm 16 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml16_ep0_es0.out OK +412: splazers -sm 16 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml16_ep0_es1.out OK +412: splazers -sm 16 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml16_ep0_es2.out OK +412: splazers -sm 16 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml16_ep1_es0.out OK +412: splazers -sm 16 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml16_ep1_es1.out OK +412: splazers -sm 16 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml16_ep1_es2.out OK +412: splazers -sm 17 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml17_ep0_es0.out OK +412: splazers -sm 17 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml17_ep0_es1.out OK +412: splazers -sm 17 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml17_ep0_es2.out OK +412: splazers -sm 17 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml17_ep1_es0.out OK +412: splazers -sm 17 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml17_ep1_es1.out OK +412: splazers -sm 17 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml17_ep1_es2.out OK +412: splazers -sm 18 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml18_ep0_es0.out OK +412: splazers -sm 18 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml18_ep0_es1.out OK +412: splazers -sm 18 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml18_ep0_es2.out OK +412: splazers -sm 18 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml18_ep1_es0.out OK +412: splazers -sm 18 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml18_ep1_es1.out OK +412: splazers -sm 18 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml18_ep1_es2.out OK +412: splazers -sm 19 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml19_ep0_es0.out OK +412: splazers -sm 19 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml19_ep0_es1.out OK +412: splazers -sm 19 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml19_ep0_es2.out OK +412: splazers -sm 19 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml19_ep1_es0.out OK +412: splazers -sm 19 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml19_ep1_es1.out OK +412: splazers -sm 19 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml19_ep1_es2.out OK +412: splazers -sm 20 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20_ep0_es0.out OK +412: splazers -sm 20 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20_ep0_es1.out OK +412: splazers -sm 20 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20_ep0_es2.out OK +412: splazers -sm 20 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20_ep1_es0.out OK +412: splazers -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20_ep1_es1.out OK +412: splazers -sm 20 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20_ep1_es2.out OK +412: splazers -sm 21 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml21_ep0_es0.out OK +403: razers3 -tc 0 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-i97-tc0.razers OK +403: razers3 -tc 0 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-i98-tc0.razers OK +403: razers3 -tc 0 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-i99-tc0.razers OK +403: razers3 -tc 0 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-i100-tc0.razers OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-of0-tc0.razers OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-of1-tc0.fa OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-of2-tc0.eland OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-of3-tc0.gff OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-of4-tc0.sam OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-of5-tc0.afg OK +403: razers3 -tc 0 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-so0-tc0.razers OK +403: razers3 -tc 0 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1joq201_/se-adeno-reads100_1-so1-tc0.razers OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-tc0.razers OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-tc0.razers OK +403: razers3 -tc 0 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-r-tc0.razers OK +403: razers3 -tc 0 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-f-tc0.razers OK +403: razers3 -tc 0 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-i90-tc0.razers OK +403: razers3 -tc 0 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-i91-tc0.razers OK +403: razers3 -tc 0 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-i92-tc0.razers OK +403: razers3 -tc 0 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-i93-tc0.razers OK +403: razers3 -tc 0 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-i94-tc0.razers OK +403: razers3 -tc 0 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-i95-tc0.razers OK +403: razers3 -tc 0 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-i96-tc0.razers OK +403: razers3 -tc 0 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-i97-tc0.razers OK +403: razers3 -tc 0 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-i98-tc0.razers OK +403: razers3 -tc 0 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-i99-tc0.razers OK +403: razers3 -tc 0 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-i100-tc0.razers OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-of0-tc0.razers OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-of1-tc0.fa OK +402: razers3 -tc 1 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-i97-tc1.razers OK +402: razers3 -tc 1 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-i98-tc1.razers OK +402: razers3 -tc 1 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-i99-tc1.razers OK +402: razers3 -tc 1 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-i100-tc1.razers OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-of0-tc1.razers OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-of1-tc1.fa OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-of2-tc1.eland OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-of3-tc1.gff OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-of4-tc1.sam OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-of5-tc1.afg OK +402: razers3 -tc 1 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-so0-tc1.razers OK +402: razers3 -tc 1 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp3q5ew918/se-adeno-reads100_1-so1-tc1.razers OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-tc1.razers OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-tc1.razers OK +402: razers3 -tc 1 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-r-tc1.razers OK +402: razers3 -tc 1 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-f-tc1.razers OK +402: razers3 -tc 1 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-i90-tc1.razers OK +402: razers3 -tc 1 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-i91-tc1.razers OK +402: razers3 -tc 1 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-i92-tc1.razers OK +402: razers3 -tc 1 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-i93-tc1.razers OK +402: razers3 -tc 1 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-i94-tc1.razers OK +402: razers3 -tc 1 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-i95-tc1.razers OK +402: razers3 -tc 1 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-i96-tc1.razers OK +402: razers3 -tc 1 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-i97-tc1.razers OK +402: razers3 -tc 1 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-i98-tc1.razers OK +402: razers3 -tc 1 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-i99-tc1.razers OK +402: razers3 -tc 1 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-i100-tc1.razers OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-of0-tc1.razers OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-of1-tc1.fa OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String > > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String > > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String > > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +107: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +107: StringTestCommon_LessEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_LessEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_LessEqualOperator type parameter std::vector, std::allocator > > OK +107: StringTestCommon_LessEqualOperator type parameter std::vector > OK +107: StringTestCommon_LessEqualOperator type parameter std::vector > OK +107: StringTestCommon_LessEqualOperator type parameter std::vector > OK +107: StringTestCommon_LessEqualOperator type parameter std::deque, std::allocator > > OK +107: StringTestCommon_LessEqualOperator type parameter std::deque > OK +107: StringTestCommon_LessEqualOperator type parameter std::deque > OK +107: StringTestCommon_LessEqualOperator type parameter std::deque > OK +107: StringTestCommon_LessEqualOperator type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_LessEqualOperator type parameter std::forward_list > OK +107: StringTestCommon_LessEqualOperator type parameter std::forward_list > OK +107: StringTestCommon_LessEqualOperator type parameter std::forward_list > OK +107: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String >, 4194304u, 2u> > > OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-of2-tc0.eland OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-of3-tc0.gff OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-of4-tc0.sam OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-of5-tc0.afg OK +403: razers3 -tc 0 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-so0-tc0.razers OK +403: razers3 -tc 0 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads36_2-so1-tc0.razers OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-tc0.razers OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-tc0.razers OK +403: razers3 -tc 0 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-r-tc0.razers OK +403: razers3 -tc 0 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-f-tc0.razers OK +403: razers3 -tc 0 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-i90-tc0.razers OK +403: razers3 -tc 0 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-i91-tc0.razers OK +403: razers3 -tc 0 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-i92-tc0.razers OK +403: razers3 -tc 0 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-i93-tc0.razers OK +403: razers3 -tc 0 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-i94-tc0.razers OK +403: razers3 -tc 0 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-i95-tc0.razers OK +403: razers3 -tc 0 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-i96-tc0.razers OK +403: razers3 -tc 0 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-i97-tc0.razers OK +403: razers3 -tc 0 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-i98-tc0.razers OK +403: razers3 -tc 0 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-i99-tc0.razers OK +403: razers3 -tc 0 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-i100-tc0.razers OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-of0-tc0.razers OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-of1-tc0.fa OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-of2-tc0.eland OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-of3-tc0.gff OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-of4-tc0.sam OK +107: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-of2-tc1.eland OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-of3-tc1.gff OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-of4-tc1.sam OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-of5-tc1.afg OK +402: razers3 -tc 1 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-so0-tc1.razers OK +402: razers3 -tc 1 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads36_2-so1-tc1.razers OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-tc1.razers OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-tc1.razers OK +402: razers3 -tc 1 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-r-tc1.razers OK +402: razers3 -tc 1 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-f-tc1.razers OK +402: razers3 -tc 1 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-i90-tc1.razers OK +402: razers3 -tc 1 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-i91-tc1.razers OK +402: razers3 -tc 1 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-i92-tc1.razers OK +402: razers3 -tc 1 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-i93-tc1.razers OK +402: razers3 -tc 1 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-i94-tc1.razers OK +402: razers3 -tc 1 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-i95-tc1.razers OK +402: razers3 -tc 1 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-i96-tc1.razers OK +402: razers3 -tc 1 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-i97-tc1.razers OK +402: razers3 -tc 1 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-i98-tc1.razers OK +402: razers3 -tc 1 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-i99-tc1.razers OK +402: razers3 -tc 1 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-i100-tc1.razers OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-of0-tc1.razers OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-of1-tc1.fa OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-of2-tc1.eland OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-of3-tc1.gff OK +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-of4-tc1.sam OK +403: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-of5-tc0.afgDELETING TEMP DIR /tmp/tmp1joq201_ 403: OK -403: razers3 -tc 0 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-so0-tc0.razers OK -403: razers3 -tc 0 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp0iopo4kx/pe-adeno-reads100_2-so1-tc0.razers OK +403: razers3 -tc 0 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-so0-tc0.razers OK +403: razers3 -tc 0 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1joq201_/pe-adeno-reads100_2-so1-tc0.razers OK 403: ============================== 403: total tests: 92 403: failed tests: 0 403: successful tests: 92 403: ============================== -402/415 Test #403: app_test_razers3_sequential ....................................................... Passed 5.72 sec -412: splazers -sm 21 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml21_ep0_es1.out OK -412: splazers -sm 21 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml21_ep0_es2.out OK -412: splazers -sm 21 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml21_ep1_es0.out OK -412: splazers -sm 21 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml21_ep1_es1.out OK -412: splazers -sm 21 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml21_ep1_es2.out OK -412: splazers -sm 22 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml22_ep0_es0.out OK -412: splazers -sm 22 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml22_ep0_es1.out OK -412: splazers -sm 22 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml22_ep0_es2.out OK -412: splazers -sm 22 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml22_ep1_es0.out OK -412: splazers -sm 22 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml22_ep1_es1.out OK -412: splazers -sm 22 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml22_ep1_es2.out OK -412: splazers -sm 23 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml23_ep0_es0.out OK -412: splazers -sm 23 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml23_ep0_es1.out OK -412: splazers -sm 23 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml23_ep0_es2.out OK -412: splazers -sm 23 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml23_ep1_es0.out OK -412: splazers -sm 23 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml23_ep1_es1.out OK -412: splazers -sm 23 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml23_ep1_es2.out OK -412: splazers -sm 24 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml24_ep0_es0.out OK -412: splazers -sm 24 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml24_ep0_es1.out OK -412: splazers -sm 24 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml24_ep0_es2.out OK -412: splazers -sm 24 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml24_ep1_es0.out OK -412: splazers -sm 24 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml24_ep1_es1.out OK -412: splazers -sm 24 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml24_ep1_es2.out OK -412: splazers -sm 25 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml25_ep0_es0.out OK -412: splazers -sm 25 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml25_ep0_es1.out OK -412: splazers -sm 25 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml25_ep0_es2.out OK -412: splazers -sm 25 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml25_ep1_es0.out OK -412: splazers -sm 25 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml25_ep1_es1.out OK -412: splazers -sm 25 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml25_ep1_es2.out OK -412: splazers -r -id -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20-r_ep1_es1.out OK -412: splazers -f -id -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20-f_ep1_es1.out OK -412: splazers -i 90 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20-i90_ep1_es1.out OK -412: splazers -i 91 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20-i91_ep1_es1.out OK -68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -27: test_bam_io_bam_file_bam_file_seek OK -27: test_bam_io_sam_file_issue_489 OK -27: test_bam_io_bam_index_save OK -27: test_bam_io_bam_index_open OK -412: splazers -i 92 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20-i92_ep1_es1.outDELETING TEMP DIR /tmp/tmpk61gty0v -27: ************************************** -27: Total Tests: 107 -27: Skipped: 0 -27: Errors: 0 -27: ************************************** -403/415 Test #27: test_test_bam_io .................................................................. Passed 9.12 sec -412: OK -412: splazers -i 93 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20-i93_ep1_es1.out OK -412: splazers -i 94 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20-i94_ep1_es1.out OK -412: splazers -i 95 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20-i95_ep1_es1.out OK -412: splazers -i 96 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20-i96_ep1_es1.out OK -412: splazers -i 97 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20-i97_ep1_es1.out OK -412: splazers -i 98 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20-i98_ep1_es1.out OK -412: splazers -i 99 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20-i99_ep1_es1.out OK -412: splazers -of 3 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20-of3_ep1_es1.out OK -412: splazers -of 4 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20-of4_ep1_es1.out OK -412: splazers -so 0 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20-so0_ep1_es1.out OK -412: splazers -so 1 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpk61gty0v/se-adeno-reads100_1_mml20-so1_ep1_es1.out OK -412: splazers -an /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads-pe.sam -o /tmp/tmpk61gty0v/anchored_adeno_example100.out -ll 300 -le 90 OK -412: ============================== -412: total tests: 78 -412: failed tests: 0 -412: successful tests: 78 -412: ============================== -404/415 Test #412: app_test_splazers ................................................................. Passed 6.87 sec -68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK -79: test_journaled_string_tree_find_horspool OK -68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -401: razers --low-memory -id -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-i98.razers OK -401: razers --low-memory -id -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-i99.razers OK -401: razers --low-memory -id -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-i100.razers OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-of0.razers OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-of1.fa OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-of2.eland OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-of3.gff OK -401: razers --low-memory -id -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-so0.razers OK -401: razers --low-memory -id -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmp_m6ntpxg/se-adeno-reads100_1-id-so1.razers OK -401: razers --low-memory /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2.razers OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id.razers OK -401: razers --low-memory -id -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-r.razers OK -401: razers --low-memory -id -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-f.razers OK -401: razers --low-memory -id -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-i90.razers OK -401: razers --low-memory -id -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-i91.razers OK -401: razers --low-memory -id -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-i92.razers OK -401: razers --low-memory -id -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-i93.razers OK -401: razers --low-memory -id -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-i94.razers OK -401: razers --low-memory -id -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-i95.razers OK -401: razers --low-memory -id -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-i96.razers OK -401: razers --low-memory -id -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-i97.razers OK -401: razers --low-memory -id -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-i98.razers OK -401: razers --low-memory -id -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-i99.razers OK -401: razers --low-memory -id -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-i100.razers OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-of0.razers OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-of1.fa OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-of2.eland OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-of3.gff OK -68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -68: ************************************** -68: Total Tests: 12 -68: Skipped: 0 -68: Errors: 0 -68: ************************************** -405/415 Test #68: test_test_index_bifm .............................................................. Passed 14.18 sec -411: DELETING TEMP DIR /tmp/tmpyyohjld9 +402/415 Test #403: app_test_razers3_sequential ....................................................... Passed 15.10 sec +402: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-of5-tc1.afgDELETING TEMP DIR /tmp/tmp3q5ew918 +402: OK +402: razers3 -tc 1 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-so0-tc1.razers OK +402: razers3 -tc 1 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp3q5ew918/pe-adeno-reads100_2-so1-tc1.razers OK +402: ============================== +402: total tests: 92 +402: failed tests: 0 +402: successful tests: 92 +402: ============================== +403/415 Test #402: app_test_razers3 .................................................................. Passed 15.50 sec +107: StringTestCommon_GreaterOperator type parameter seqan::String >, unsigned long> > > OK +412: splazers -sm 21 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml21_ep0_es1.out OK +412: splazers -sm 21 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml21_ep0_es2.out OK +412: splazers -sm 21 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml21_ep1_es0.out OK +412: splazers -sm 21 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml21_ep1_es1.out OK +412: splazers -sm 21 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml21_ep1_es2.out OK +412: splazers -sm 22 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml22_ep0_es0.out OK +412: splazers -sm 22 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml22_ep0_es1.out OK +412: splazers -sm 22 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml22_ep0_es2.out OK +412: splazers -sm 22 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml22_ep1_es0.out OK +412: splazers -sm 22 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml22_ep1_es1.out OK +412: splazers -sm 22 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml22_ep1_es2.out OK +412: splazers -sm 23 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml23_ep0_es0.out OK +412: splazers -sm 23 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml23_ep0_es1.out OK +412: splazers -sm 23 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml23_ep0_es2.out OK +412: splazers -sm 23 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml23_ep1_es0.out OK +412: splazers -sm 23 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml23_ep1_es1.out OK +412: splazers -sm 23 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml23_ep1_es2.out OK +412: splazers -sm 24 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml24_ep0_es0.out OK +412: splazers -sm 24 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml24_ep0_es1.out OK +412: splazers -sm 24 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml24_ep0_es2.out OK +412: splazers -sm 24 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml24_ep1_es0.out OK +412: splazers -sm 24 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml24_ep1_es1.out OK +412: splazers -sm 24 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml24_ep1_es2.out OK +412: splazers -sm 25 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml25_ep0_es0.out OK +412: splazers -sm 25 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml25_ep0_es1.out OK +412: splazers -sm 25 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml25_ep0_es2.out OK +412: splazers -sm 25 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml25_ep1_es0.out OK +412: splazers -sm 25 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml25_ep1_es1.out OK +412: splazers -sm 25 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml25_ep1_es2.out OK +412: splazers -r -id -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20-r_ep1_es1.out OK +412: splazers -f -id -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20-f_ep1_es1.out OK +412: splazers -i 90 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20-i90_ep1_es1.out OK +412: splazers -i 91 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20-i91_ep1_es1.out OK +411: DELETING TEMP DIR /tmp/tmpt0u45rpq 411: Executing test for snp_store 411: ========================= 411: -411: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.gff -o /tmp/tmpyyohjld9/snps_default.vcf -id /tmp/tmpyyohjld9/indels_default.gff OK -411: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.sam -re -o /tmp/tmpyyohjld9/snps_realign.vcf -id /tmp/tmpyyohjld9/indels_realign.gff OK -411: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.sam -it 1 -re -oa -mp 1 -m maq -hq -o /tmp/tmpyyohjld9/snps_realign_m1mp1oa.vcf -id /tmp/tmpyyohjld9/indels_realign_m1mp1oa.gff OK -411: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.gff -it 2 -re -oa -mp 1 -hq -o /tmp/tmpyyohjld9/snps_realign_m0mp1oa.vcf -id /tmp/tmpyyohjld9/indels_realign_m0mp1oa.gff OK -411: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.sam -it 1 -ipt 0.1 -osc -re -oa -hq -o /tmp/tmpyyohjld9/snps_realign_m0mp1oa_it1ipt01.vcf -id /tmp/tmpyyohjld9/indels_realign_m0mp1oa_it1ipt01.gff OK +411: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.gff -o /tmp/tmpt0u45rpq/snps_default.vcf -id /tmp/tmpt0u45rpq/indels_default.gff OK +411: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.sam -re -o /tmp/tmpt0u45rpq/snps_realign.vcf -id /tmp/tmpt0u45rpq/indels_realign.gff OK +411: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.sam -it 1 -re -oa -mp 1 -m maq -hq -o /tmp/tmpt0u45rpq/snps_realign_m1mp1oa.vcf -id /tmp/tmpt0u45rpq/indels_realign_m1mp1oa.gff OK +411: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.gff -it 2 -re -oa -mp 1 -hq -o /tmp/tmpt0u45rpq/snps_realign_m0mp1oa.vcf -id /tmp/tmpt0u45rpq/indels_realign_m0mp1oa.gff OK +411: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.sam -it 1 -ipt 0.1 -osc -re -oa -hq -o /tmp/tmpt0u45rpq/snps_realign_m0mp1oa_it1ipt01.vcf -id /tmp/tmpt0u45rpq/indels_realign_m0mp1oa_it1ipt01.gff OK 411: ============================== 411: total tests: 5 411: failed tests: 0 411: successful tests: 5 411: ============================== -406/415 Test #411: app_test_snp_store ................................................................ Passed 13.04 sec -396: DELETING TEMP DIR /tmp/tmpv4vvsebw +404/415 Test #411: app_test_snp_store ................................................................ Passed 18.92 sec +107: StringTestCommon_GreaterOperator type parameter seqan::String >, unsigned long> > > OK +412: splazers -i 92 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20-i92_ep1_es1.outDELETING TEMP DIR /tmp/tmpe62lx2bw +412: OK +412: splazers -i 93 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20-i93_ep1_es1.out OK +412: splazers -i 94 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20-i94_ep1_es1.out OK +412: splazers -i 95 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20-i95_ep1_es1.out OK +412: splazers -i 96 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20-i96_ep1_es1.out OK +412: splazers -i 97 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20-i97_ep1_es1.out OK +412: splazers -i 98 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20-i98_ep1_es1.out OK +412: splazers -i 99 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20-i99_ep1_es1.out OK +412: splazers -of 3 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20-of3_ep1_es1.out OK +412: splazers -of 4 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20-of4_ep1_es1.out OK +412: splazers -so 0 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20-so0_ep1_es1.out OK +412: splazers -so 1 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpe62lx2bw/se-adeno-reads100_1_mml20-so1_ep1_es1.out OK +412: splazers -an /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads-pe.sam -o /tmp/tmpe62lx2bw/anchored_adeno_example100.out -ll 300 -le 90 OK +412: ============================== +412: total tests: 78 +412: failed tests: 0 +412: successful tests: 78 +412: ============================== +79: test_journaled_string_tree_find_shiftor OK +405/415 Test #412: app_test_splazers ................................................................. Passed 20.19 sec +396: DELETING TEMP DIR /tmp/tmpuyowahv5 396: Executing test for micro_razers 396: =============================== 396: -396: micro_razers /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_default.razers OK -396: micro_razers -sL 14 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl14.razers OK -396: micro_razers -sL 14 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl14.sam OK -396: micro_razers -sL 14 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl14_se.razers OK -396: micro_razers -sL 15 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl15.razers OK -396: micro_razers -sL 15 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl15.sam OK -396: micro_razers -sL 15 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl15_se.razers OK -396: micro_razers -sL 16 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl16.razers OK -396: micro_razers -sL 16 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl16.sam OK -396: micro_razers -sL 16 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl16_se.razers OK -396: micro_razers -sL 17 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl17.razers OK -396: micro_razers -sL 17 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl17.sam OK -396: micro_razers -sL 17 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl17_se.razers OK -396: micro_razers -sL 18 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl18.razers OK -396: micro_razers -sL 18 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl18.sam OK -396: micro_razers -sL 18 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl18_se.razers OK -396: micro_razers -sL 19 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl19.razers OK -396: micro_razers -sL 19 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl19.sam OK -396: micro_razers -sL 19 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl19_se.razers OK -396: micro_razers -sL 20 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl20.razers OK -396: micro_razers -sL 20 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl20.sam OK -396: micro_razers -sL 20 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl20_se.razers OK -396: micro_razers -sL 18 -m 20 -pa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpv4vvsebw/se-adeno-reads36_1_sl18_m20_pa.razers OK +396: micro_razers /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_default.razers OK +396: micro_razers -sL 14 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl14.razers OK +396: micro_razers -sL 14 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl14.sam OK +396: micro_razers -sL 14 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl14_se.razers OK +396: micro_razers -sL 15 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl15.razers OK +396: micro_razers -sL 15 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl15.sam OK +396: micro_razers -sL 15 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl15_se.razers OK +396: micro_razers -sL 16 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl16.razers OK +396: micro_razers -sL 16 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl16.sam OK +396: micro_razers -sL 16 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl16_se.razers OK +396: micro_razers -sL 17 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl17.razers OK +396: micro_razers -sL 17 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl17.sam OK +396: micro_razers -sL 17 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl17_se.razers OK +396: micro_razers -sL 18 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl18.razers OK +396: micro_razers -sL 18 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl18.sam OK +396: micro_razers -sL 18 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl18_se.razers OK +396: micro_razers -sL 19 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl19.razers OK +396: micro_razers -sL 19 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl19.sam OK +396: micro_razers -sL 19 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl19_se.razers OK +396: micro_razers -sL 20 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl20.razers OK +396: micro_razers -sL 20 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl20.sam OK +396: micro_razers -sL 20 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl20_se.razers OK +396: micro_razers -sL 18 -m 20 -pa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpuyowahv5/se-adeno-reads36_1_sl18_m20_pa.razers OK 396: ============================== 396: total tests: 23 396: failed tests: 0 396: successful tests: 23 396: ============================== -407/415 Test #396: app_test_micro_razers ............................................................. Passed 16.27 sec -391: DELETING TEMP DIR /tmp/tmppb1c1eqz -391: Executing test for bs_tools -391: ========================= -391: -391: bisar -e3 4 -e4 5 -o /tmp/tmppb1c1eqz/reads_se_N6000_0.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq -391: OK -391: bisar -gas -4.5 -ges -2.0 -der 0.001 -bsc 0.99 -gmr 0.5 -i 0.8 -rn 0.001 -pms 0.9 -e3 4 -e4 5 -o /tmp/tmppb1c1eqz/reads_se_N6000_1.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq -391: OK -391: bisar -nse -nsi -nsd -gas -4.5 -ges -2.0 -der 0.001 -bsc 0.99 -gmr 0.5 -i 0.8 -rn 0.001 -pms 0.9 -e3 4 -e4 5 -o /tmp/tmppb1c1eqz/reads_se_N6000_2.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq -391: OK -391: bisar -nse -nsi -nsd -gas -4.5 -ges -2.0 -der 0.001 -bsc 0.99 -gmr 0.2 -i 0.8 -rn 0.001 -pms 0.9 -e3 4 -e4 5 -o /tmp/tmppb1c1eqz/reads_se_N6000_3.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq -391: OK -391: bisar -nse -nsi -nsd -gas -4.5 -ges -2.0 -der 0.001 -bsc 0.99 -gmr 0.8 -i 0.8 -rn 0.001 -pms 0.9 -e3 4 -e4 5 -o /tmp/tmppb1c1eqz/reads_se_N6000_4.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq -391: OK -391: bisar -e3 4 -e4 5 -o /tmp/tmppb1c1eqz/reads_pe_N6000_0.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_pe_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_pe_N6000.L.fastq /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_pe_N6000.R.fastq -391: OK -391: casbar -nec -mc 6 -msc 5 -mpc 0.5 -hes 0.005 -o /tmp/tmppb1c1eqz/snps_se_0.vcf -b /tmp/tmppb1c1eqz/meths_se_0.bed /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000_2.CT_GA.verified.pos_so.sam -391: OK -391: casbar -nec -mc 2 -msc 3 -mpc 0.5 -hes 0.005 -o /tmp/tmppb1c1eqz/snps_se_1.vcf -b /tmp/tmppb1c1eqz/meths_se_1.bed /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000_2.CT_GA.verified.pos_so.sam -391: OK -391: casbar -nec -mc 6 -msc 5 -mpc 0.5 -hes 0.005 -o /tmp/tmppb1c1eqz/snps_pe_0.vcf -b /tmp/tmppb1c1eqz/meths_pe_0.bed /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_pe_N6000_0.CT_GA.verified.pos_so.sam -391: OK -391: ============================== -391: total tests: 9 -391: failed tests: 0 -391: successful tests: 9 -391: ============================== -408/415 Test #391: app_test_bs_tools ................................................................. Passed 17.26 sec -79: test_journaled_string_tree_find_shiftand OK +406/415 Test #396: app_test_micro_razers ............................................................. Passed 21.32 sec +401: razers --low-memory -id -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-i98.razers OK +401: razers --low-memory -id -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-i99.razers OK +401: razers --low-memory -id -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-i100.razers OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-of0.razers OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-of1.fa OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-of2.eland OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-of3.gff OK +401: razers --low-memory -id -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-so0.razers OK +401: razers --low-memory -id -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpr3cxu55d/se-adeno-reads100_1-id-so1.razers OK +401: razers --low-memory /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2.razers OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id.razers OK +401: razers --low-memory -id -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-r.razers OK +401: razers --low-memory -id -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-f.razers OK +401: razers --low-memory -id -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-i90.razers OK +401: razers --low-memory -id -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-i91.razers OK +401: razers --low-memory -id -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-i92.razers OK +401: razers --low-memory -id -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-i93.razers OK +401: razers --low-memory -id -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-i94.razers OK +401: razers --low-memory -id -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-i95.razers OK +401: razers --low-memory -id -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-i96.razers OK +401: razers --low-memory -id -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-i97.razers OK +401: razers --low-memory -id -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-i98.razers OK +401: razers --low-memory -id -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-i99.razers OK +401: razers --low-memory -id -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-i100.razers OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-of0.razers OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-of1.fa OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-of2.eland OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-of3.gff OK +107: StringTestCommon_GreaterOperator type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String > > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String > > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String > > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterOperator type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_GreaterOperator type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_GreaterOperator type parameter std::vector, std::allocator > > OK +107: StringTestCommon_GreaterOperator type parameter std::vector > OK +107: StringTestCommon_GreaterOperator type parameter std::vector > OK +107: StringTestCommon_GreaterOperator type parameter std::vector > OK +107: StringTestCommon_GreaterOperator type parameter std::deque, std::allocator > > OK +107: StringTestCommon_GreaterOperator type parameter std::deque > OK +107: StringTestCommon_GreaterOperator type parameter std::deque > OK +107: StringTestCommon_GreaterOperator type parameter std::deque > OK +107: StringTestCommon_GreaterOperator type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_GreaterOperator type parameter std::forward_list > OK +107: StringTestCommon_GreaterOperator type parameter std::forward_list > OK +107: StringTestCommon_GreaterOperator type parameter std::forward_list > OK +107: StringTestCommon_GreaterOperator type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_GreaterOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_GreaterOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_GreaterOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK 413: Executing test for stellar 413: ========================= 413: -413: stellar -e 0.1 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpz4hda04p/e-1.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_e-1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_e-1.fa +413: stellar -e 0.1 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpwcu39tl4/e-1.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_e-1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_e-1.fa 413: OK -413: stellar -e 0.05 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpz4hda04p/5e-2.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_5e-2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_5e-2.fa +413: stellar -e 0.05 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpwcu39tl4/5e-2.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_5e-2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_5e-2.fa 413: OK -413: stellar -e 0.025 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpz4hda04p/25e-3.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_25e-3.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_25e-3.fa +413: stellar -e 0.025 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpwcu39tl4/25e-3.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_25e-3.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_25e-3.fa 413: OK -413: stellar -e 0.075 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpz4hda04p/75e-3.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_75e-3.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_75e-3.fa +413: stellar -e 0.075 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpwcu39tl4/75e-3.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_75e-3.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_75e-3.fa 413: OK -413: stellar -e 0.0001 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpz4hda04p/e-4.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_e-4.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_e-4.fa +413: stellar -e 0.0001 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpwcu39tl4/e-4.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_e-4.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_e-4.fa 413: OK -413: stellar -e 0.05 -l 20 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpz4hda04p/minLen20.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_5e-2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_5e-2.fa +413: stellar -e 0.05 -l 20 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpwcu39tl4/minLen20.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_5e-2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_5e-2.fa 413: OK -413: stellar -e 0.05 -l 150 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpz4hda04p/minLen150.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_5e-2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_5e-2.fa +413: stellar -e 0.05 -l 150 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpwcu39tl4/minLen150.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_5e-2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_5e-2.fa 413: OK -413: stellar -e 0.05 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpz4hda04p/5e-2.txt /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_5e-2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_5e-2.fa +413: stellar -e 0.05 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpwcu39tl4/5e-2.txt /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_5e-2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_5e-2.fa 413: OK 413: ============================== 413: total tests: 8 413: failed tests: 0 413: successful tests: 8 413: ============================== -409/415 Test #413: app_test_stellar .................................................................. Passed 20.13 sec -407: DELETING TEMP DIR /tmp/tmprydtwwqx +407/415 Test #413: app_test_stellar .................................................................. Passed 23.26 sec +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +407: DELETING TEMP DIR /tmp/tmp0ba7ngo5 407: Executing test for searchjoin 407: =========================== 407: -407: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_database.csv 0 -i geo -t 4 -sl 5 -o /tmp/tmprydtwwqx/join_geo_0_5.out OK -407: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_database.csv 1 -i geo -t 4 -sl 5 -o /tmp/tmprydtwwqx/join_geo_1_5.out OK -407: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_database.csv 3 -i geo -t 4 -sl 5 -o /tmp/tmprydtwwqx/join_geo_3_5.out OK -407: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_database.csv 0 -i dna -t 4 -sl 10 -o /tmp/tmprydtwwqx/join_dna_0_10.out OK -407: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_database.csv 8 -i dna -t 4 -sl 10 -o /tmp/tmprydtwwqx/join_dna_8_10.out OK -407: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_database.csv 16 -i dna -t 4 -sl 10 -o /tmp/tmprydtwwqx/join_dna_16_10.out OK -407: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_search /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_database.csv /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_queries.csv --no-wait -i geo -t 4 -sl 5 -o /tmp/tmprydtwwqx/search_geo_5.out OK -407: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_search /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_database.csv /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_queries.csv --no-wait -i dna -t 4 -sl 10 -o /tmp/tmprydtwwqx/search_dna_10.out OK +407: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_database.csv 0 -i geo -t 4 -sl 5 -o /tmp/tmp0ba7ngo5/join_geo_0_5.out OK +407: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_database.csv 1 -i geo -t 4 -sl 5 -o /tmp/tmp0ba7ngo5/join_geo_1_5.out OK +407: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_database.csv 3 -i geo -t 4 -sl 5 -o /tmp/tmp0ba7ngo5/join_geo_3_5.out OK +407: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_database.csv 0 -i dna -t 4 -sl 10 -o /tmp/tmp0ba7ngo5/join_dna_0_10.out OK +407: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_database.csv 8 -i dna -t 4 -sl 10 -o /tmp/tmp0ba7ngo5/join_dna_8_10.out OK +407: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_database.csv 16 -i dna -t 4 -sl 10 -o /tmp/tmp0ba7ngo5/join_dna_16_10.out OK +407: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_search /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_database.csv /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_queries.csv --no-wait -i geo -t 4 -sl 5 -o /tmp/tmp0ba7ngo5/search_geo_5.out OK +407: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_search /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_database.csv /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_queries.csv --no-wait -i dna -t 4 -sl 10 -o /tmp/tmp0ba7ngo5/search_dna_10.out OK 407: ============================== 407: total tests: 8 407: failed tests: 0 407: successful tests: 8 407: ============================== -410/415 Test #407: app_test_searchjoin ............................................................... Passed 20.69 sec -401: razers --low-memory -id -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-so0.razersDELETING TEMP DIR /tmp/tmp_m6ntpxg -401: OK -401: razers --low-memory -id -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads36_2-id-so1.razers OK -401: razers --low-memory /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2.razers OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id.razers OK -401: razers --low-memory -id -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-r.razers OK -401: razers --low-memory -id -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-f.razers OK -401: razers --low-memory -id -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-i90.razers OK -401: razers --low-memory -id -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-i91.razers OK -401: razers --low-memory -id -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-i92.razers OK -401: razers --low-memory -id -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-i93.razers OK -401: razers --low-memory -id -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-i94.razers OK -401: razers --low-memory -id -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-i95.razers OK -401: razers --low-memory -id -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-i96.razers OK -401: razers --low-memory -id -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-i97.razers OK -401: razers --low-memory -id -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-i98.razers OK -401: razers --low-memory -id -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-i99.razers OK -401: razers --low-memory -id -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-i100.razers OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-of0.razers OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-of1.fa OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-of2.eland OK -401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-of3.gff OK -401: razers --low-memory -id -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-so0.razers OK -401: razers --low-memory -id -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmp_m6ntpxg/pe-adeno-reads100_2-id-so1.razers OK -401: ============================== -401: total tests: 84 -401: failed tests: 0 -401: successful tests: 84 -401: ============================== -411/415 Test #401: app_test_razers ................................................................... Passed 22.73 sec -79: test_journaled_string_tree_find_shiftor OK +408/415 Test #407: app_test_searchjoin ............................................................... Passed 28.04 sec +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, unsigned long> > > OK 79: test_journaled_string_tree_find_myers OK 79: ************************************** 79: Total Tests: 4 79: Skipped: 0 79: Errors: 0 79: ************************************** -412/415 Test #79: test_journaled_string_tree_find ................................................... Passed 38.22 sec -400: DELETING TEMP DIR /tmp/tmp76of18ru +409/415 Test #79: test_journaled_string_tree_find ................................................... Passed 34.03 sec +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::vector, std::allocator > > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::vector > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::vector > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::vector > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::deque, std::allocator > > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::deque > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::deque > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::deque > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::forward_list > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::forward_list > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::forward_list > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_EqualOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_EqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_EqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_EqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +401: razers --low-memory -id -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-so0.razersDELETING TEMP DIR /tmp/tmpr3cxu55d +400: DELETING TEMP DIR /tmp/tmp6z0c23wc 400: Executing test for rabema 400: ========================= 400: -400: rabema_prepare_sam -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.sam -o /tmp/tmp76of18ru/gold-adeno-hamming-08.by_qname.sam OK -400: rabema_prepare_sam -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.sam -o /tmp/tmp76of18ru/gold-adeno-edit-08.by_qname.sam OK -400: rabema_build_gold_standard --distance-metric hamming -e 8 -o /tmp/tmp76of18ru/gold-adeno-hamming-08.gsi --reference /tmp/tmp76of18ru/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.by_coordinate.sam OK -400: rabema_build_gold_standard --distance-metric edit -e 8 -o /tmp/tmp76of18ru/gold-adeno-edit-08.gsi --reference /tmp/tmp76of18ru/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.by_coordinate.sam OK -400: rabema_evaluate --distance-metric hamming -e 8 --reference /tmp/tmp76of18ru/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/razers2-adeno-hamming-08.sam --in-gsi /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.gsi OK -400: rabema_evaluate --distance-metric hamming -e 8 --reference /tmp/tmp76of18ru/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/razers2-adeno-hamming-04.sam --in-gsi /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.gsi OK -400: rabema_evaluate --distance-metric edit -e 8 --reference /tmp/tmp76of18ru/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/razers2-adeno-edit-08.sam --in-gsi /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.gsi OK -400: rabema_evaluate --distance-metric edit -e 8 --reference /tmp/tmp76of18ru/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/razers2-adeno-edit-04.sam --in-gsi /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.gsi OK +400: rabema_prepare_sam -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.sam -o /tmp/tmp6z0c23wc/gold-adeno-hamming-08.by_qname.sam OK +400: rabema_prepare_sam -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.sam -o /tmp/tmp6z0c23wc/gold-adeno-edit-08.by_qname.sam OK +400: rabema_build_gold_standard --distance-metric hamming -e 8 -o /tmp/tmp6z0c23wc/gold-adeno-hamming-08.gsi --reference /tmp/tmp6z0c23wc/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.by_coordinate.sam OK +400: rabema_build_gold_standard --distance-metric edit -e 8 -o /tmp/tmp6z0c23wc/gold-adeno-edit-08.gsi --reference /tmp/tmp6z0c23wc/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.by_coordinate.sam OK +400: rabema_evaluate --distance-metric hamming -e 8 --reference /tmp/tmp6z0c23wc/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/razers2-adeno-hamming-08.sam --in-gsi /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.gsi OK +400: rabema_evaluate --distance-metric hamming -e 8 --reference /tmp/tmp6z0c23wc/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/razers2-adeno-hamming-04.sam --in-gsi /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.gsi OK +400: rabema_evaluate --distance-metric edit -e 8 --reference /tmp/tmp6z0c23wc/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/razers2-adeno-edit-08.sam --in-gsi /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.gsi OK +400: rabema_evaluate --distance-metric edit -e 8 --reference /tmp/tmp6z0c23wc/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/razers2-adeno-edit-04.sam --in-gsi /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.gsi OK 400: ============================== 400: total tests: 8 400: failed tests: 0 400: successful tests: 8 400: ============================== -413/415 Test #400: app_test_rabema ................................................................... Passed 37.89 sec -393: DELETING TEMP DIR /tmp/tmp03k3skh7 +410/415 Test #400: app_test_rabema ................................................................... Passed 35.54 sec +401: OK +401: razers --low-memory -id -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads36_2-id-so1.razers OK +401: razers --low-memory /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2.razers OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id.razers OK +401: razers --low-memory -id -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-r.razers OK +401: razers --low-memory -id -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-f.razers OK +401: razers --low-memory -id -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-i90.razers OK +401: razers --low-memory -id -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-i91.razers OK +401: razers --low-memory -id -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-i92.razers OK +401: razers --low-memory -id -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-i93.razers OK +401: razers --low-memory -id -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-i94.razers OK +401: razers --low-memory -id -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-i95.razers OK +401: razers --low-memory -id -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-i96.razers OK +401: razers --low-memory -id -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-i97.razers OK +401: razers --low-memory -id -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-i98.razers OK +401: razers --low-memory -id -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-i99.razers OK +401: razers --low-memory -id -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-i100.razers OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-of0.razers OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-of1.fa OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-of2.eland OK +401: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-of3.gff OK +401: razers --low-memory -id -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-so0.razers OK +401: razers --low-memory -id -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpr3cxu55d/pe-adeno-reads100_2-id-so1.razers OK +401: ============================== +401: total tests: 84 +401: failed tests: 0 +401: successful tests: 84 +401: ============================== +411/415 Test #401: app_test_razers ................................................................... Passed 35.89 sec +391: DELETING TEMP DIR /tmp/tmps5c1zjac +391: Executing test for bs_tools +391: ========================= +391: +391: bisar -e3 4 -e4 5 -o /tmp/tmps5c1zjac/reads_se_N6000_0.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq +391: OK +391: bisar -gas -4.5 -ges -2.0 -der 0.001 -bsc 0.99 -gmr 0.5 -i 0.8 -rn 0.001 -pms 0.9 -e3 4 -e4 5 -o /tmp/tmps5c1zjac/reads_se_N6000_1.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq +391: OK +391: bisar -nse -nsi -nsd -gas -4.5 -ges -2.0 -der 0.001 -bsc 0.99 -gmr 0.5 -i 0.8 -rn 0.001 -pms 0.9 -e3 4 -e4 5 -o /tmp/tmps5c1zjac/reads_se_N6000_2.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq +391: OK +391: bisar -nse -nsi -nsd -gas -4.5 -ges -2.0 -der 0.001 -bsc 0.99 -gmr 0.2 -i 0.8 -rn 0.001 -pms 0.9 -e3 4 -e4 5 -o /tmp/tmps5c1zjac/reads_se_N6000_3.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq +391: OK +391: bisar -nse -nsi -nsd -gas -4.5 -ges -2.0 -der 0.001 -bsc 0.99 -gmr 0.8 -i 0.8 -rn 0.001 -pms 0.9 -e3 4 -e4 5 -o /tmp/tmps5c1zjac/reads_se_N6000_4.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq +391: OK +391: bisar -e3 4 -e4 5 -o /tmp/tmps5c1zjac/reads_pe_N6000_0.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_pe_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_pe_N6000.L.fastq /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_pe_N6000.R.fastq +391: OK +391: casbar -nec -mc 6 -msc 5 -mpc 0.5 -hes 0.005 -o /tmp/tmps5c1zjac/snps_se_0.vcf -b /tmp/tmps5c1zjac/meths_se_0.bed /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000_2.CT_GA.verified.pos_so.sam +391: OK +391: casbar -nec -mc 2 -msc 3 -mpc 0.5 -hes 0.005 -o /tmp/tmps5c1zjac/snps_se_1.vcf -b /tmp/tmps5c1zjac/meths_se_1.bed /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000_2.CT_GA.verified.pos_so.sam +391: OK +391: casbar -nec -mc 6 -msc 5 -mpc 0.5 -hes 0.005 -o /tmp/tmps5c1zjac/snps_pe_0.vcf -b /tmp/tmps5c1zjac/meths_pe_0.bed /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_pe_N6000_0.CT_GA.verified.pos_so.sam +391: OK +391: ============================== +391: total tests: 9 +391: failed tests: 0 +391: successful tests: 9 +391: ============================== +412/415 Test #391: app_test_bs_tools ................................................................. Passed 37.16 sec +107: StringTestCommon_EqualOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_EqualOperator type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_EqualOperator type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_EqualOperator type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_EqualOperator type parameter seqan::String > > OK +107: StringTestCommon_EqualOperator type parameter seqan::String > > OK +107: StringTestCommon_EqualOperator type parameter seqan::String > > OK +107: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_EqualOperator type parameter seqan::String > OK +107: StringTestCommon_EqualOperator type parameter seqan::String > OK +107: StringTestCommon_EqualOperator type parameter seqan::String > OK +107: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_EqualOperator type parameter seqan::String > OK +107: StringTestCommon_EqualOperator type parameter seqan::String > OK +107: StringTestCommon_EqualOperator type parameter seqan::String > OK +107: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_EqualOperator type parameter seqan::String > OK +107: StringTestCommon_EqualOperator type parameter seqan::String > OK +107: StringTestCommon_EqualOperator type parameter seqan::String > OK +107: StringTestCommon_EqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_EqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_EqualOperator type parameter std::vector, std::allocator > > OK +107: StringTestCommon_EqualOperator type parameter std::vector > OK +107: StringTestCommon_EqualOperator type parameter std::vector > OK +107: StringTestCommon_EqualOperator type parameter std::vector > OK +107: StringTestCommon_EqualOperator type parameter std::deque, std::allocator > > OK +107: StringTestCommon_EqualOperator type parameter std::deque > OK +107: StringTestCommon_EqualOperator type parameter std::deque > OK +107: StringTestCommon_EqualOperator type parameter std::deque > OK +107: StringTestCommon_EqualOperator type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_EqualOperator type parameter std::forward_list > OK +107: StringTestCommon_EqualOperator type parameter std::forward_list > OK +107: StringTestCommon_EqualOperator type parameter std::forward_list > OK +107: StringTestCommon_EqualOperator type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_EqualOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_EqualOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_EqualOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String >, unsigned long> > > OK +393: DELETING TEMP DIR /tmp/tmph26zvm5_ 393: Executing test for fiona 393: ======================== 393: -393: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/compute_gain -g /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/genome.10k.fa --pre /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.illumina.sam --post /tmp/tmp03k3skh7/reads.illumina.corrected.i1.fa -393: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/fiona_illumina -nt 1 -i 1 -g 10000 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.illumina.fq /tmp/tmp03k3skh7/reads.illumina.corrected.i1.fa +393: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/compute_gain -g /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/genome.10k.fa --pre /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.illumina.sam --post /tmp/tmph26zvm5_/reads.illumina.corrected.i1.fa +393: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/fiona_illumina -nt 1 -i 1 -g 10000 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.illumina.fq /tmp/tmph26zvm5_/reads.illumina.corrected.i1.fa 393: OK -393: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/compute_gain -g /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/genome.10k.fa --pre /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.illumina.sam --post /tmp/tmp03k3skh7/reads.illumina.corrected.i2.fa -393: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/fiona_illumina -nt 1 -i 2 -g 10000 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.illumina.fq /tmp/tmp03k3skh7/reads.illumina.corrected.i2.fa +393: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/compute_gain -g /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/genome.10k.fa --pre /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.illumina.sam --post /tmp/tmph26zvm5_/reads.illumina.corrected.i2.fa +393: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/fiona_illumina -nt 1 -i 2 -g 10000 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.illumina.fq /tmp/tmph26zvm5_/reads.illumina.corrected.i2.fa 393: OK -393: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/compute_gain -g /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/genome.10k.fa --pre /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.454.sam --post /tmp/tmp03k3skh7/reads.454.corrected.i1.fa -393: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/fiona -nt 1 -i 1 -g 10000 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.454.fq /tmp/tmp03k3skh7/reads.454.corrected.i1.fa +393: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/compute_gain -g /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/genome.10k.fa --pre /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.454.sam --post /tmp/tmph26zvm5_/reads.454.corrected.i1.fa +393: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/fiona -nt 1 -i 1 -g 10000 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.454.fq /tmp/tmph26zvm5_/reads.454.corrected.i1.fa 393: OK -393: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/compute_gain -g /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/genome.10k.fa --pre /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.454.sam --post /tmp/tmp03k3skh7/reads.454.corrected.i2.fa -393: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/fiona -nt 1 -i 2 -g 10000 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.454.fq /tmp/tmp03k3skh7/reads.454.corrected.i2.fa +393: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/compute_gain -g /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/genome.10k.fa --pre /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.454.sam --post /tmp/tmph26zvm5_/reads.454.corrected.i2.fa +393: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/fiona -nt 1 -i 2 -g 10000 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.454.fq /tmp/tmph26zvm5_/reads.454.corrected.i2.fa 393: OK 393: ============================== 393: total tests: 4 393: failed tests: 0 393: successful tests: 4 393: ============================== -414/415 Test #393: app_test_fiona .................................................................... Passed 62.91 sec -392: DELETING TEMP DIR /tmp/tmplrfa32yc +413/415 Test #393: app_test_fiona .................................................................... Passed 60.48 sec +107: StringTestCommon_UnequalOperator type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String > > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String > > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String > > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String > OK +107: StringTestCommon_UnequalOperator type parameter seqan::String > OK +107: StringTestCommon_UnequalOperator type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_UnequalOperator type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_UnequalOperator type parameter std::vector, std::allocator > > OK +107: StringTestCommon_UnequalOperator type parameter std::vector > OK +107: StringTestCommon_UnequalOperator type parameter std::vector > OK +107: StringTestCommon_UnequalOperator type parameter std::vector > OK +107: StringTestCommon_UnequalOperator type parameter std::deque, std::allocator > > OK +107: StringTestCommon_UnequalOperator type parameter std::deque > OK +107: StringTestCommon_UnequalOperator type parameter std::deque > OK +107: StringTestCommon_UnequalOperator type parameter std::deque > OK +107: StringTestCommon_UnequalOperator type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_UnequalOperator type parameter std::forward_list > OK +107: StringTestCommon_UnequalOperator type parameter std::forward_list > OK +107: StringTestCommon_UnequalOperator type parameter std::forward_list > OK +107: StringTestCommon_UnequalOperator type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_UnequalOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_UnequalOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_UnequalOperator type parameter std::__cxx11::list > OK +107: StringTestCommon_Assign type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_Assign type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Assign type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Assign type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Assign type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_Assign type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Assign type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Assign type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Assign type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Assign type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Assign type parameter seqan::String > > OK +107: StringTestCommon_Assign type parameter seqan::String > > OK +107: StringTestCommon_Assign type parameter seqan::String > > OK +107: StringTestCommon_Assign type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_Assign type parameter seqan::String > OK +107: StringTestCommon_Assign type parameter seqan::String > OK +107: StringTestCommon_Assign type parameter seqan::String > OK +107: StringTestCommon_Assign type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_Assign type parameter seqan::String > OK +107: StringTestCommon_Assign type parameter seqan::String > OK +107: StringTestCommon_Assign type parameter seqan::String > OK +107: StringTestCommon_Assign type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_Assign type parameter seqan::String > OK +107: StringTestCommon_Assign type parameter seqan::String > OK +107: StringTestCommon_Assign type parameter seqan::String > OK +107: StringTestCommon_Assign type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Assign type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Assign type parameter std::vector, std::allocator > > OK +107: StringTestCommon_Assign type parameter std::vector > OK +107: StringTestCommon_Assign type parameter std::vector > OK +107: StringTestCommon_Assign type parameter std::vector > OK +107: StringTestCommon_Assign type parameter std::deque, std::allocator > > OK +107: StringTestCommon_Assign type parameter std::deque > OK +107: StringTestCommon_Assign type parameter std::deque > OK +107: StringTestCommon_Assign type parameter std::deque > OK +107: StringTestCommon_Assign type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_Assign type parameter std::forward_list > OK +107: StringTestCommon_Assign type parameter std::forward_list > OK +107: StringTestCommon_Assign type parameter std::forward_list > OK +107: StringTestCommon_Assign type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_Assign type parameter std::__cxx11::list > OK +107: StringTestCommon_Assign type parameter std::__cxx11::list > OK +107: StringTestCommon_Assign type parameter std::__cxx11::list > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String > > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String > > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String > > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String > OK +107: StringTestCommon_OperatorAssign type parameter seqan::String > OK +107: StringTestCommon_OperatorAssign type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_OperatorAssign type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_OperatorAssign type parameter std::vector, std::allocator > > OK +107: StringTestCommon_OperatorAssign type parameter std::vector > OK +107: StringTestCommon_OperatorAssign type parameter std::vector > OK +107: StringTestCommon_OperatorAssign type parameter std::vector > OK +107: StringTestCommon_OperatorAssign type parameter std::deque, std::allocator > > OK +107: StringTestCommon_OperatorAssign type parameter std::deque > OK +107: StringTestCommon_OperatorAssign type parameter std::deque > OK +107: StringTestCommon_OperatorAssign type parameter std::deque > OK +107: StringTestCommon_OperatorAssign type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_OperatorAssign type parameter std::forward_list > OK +107: StringTestCommon_OperatorAssign type parameter std::forward_list > OK +107: StringTestCommon_OperatorAssign type parameter std::forward_list > OK +107: StringTestCommon_OperatorAssign type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_OperatorAssign type parameter std::__cxx11::list > OK +107: StringTestCommon_OperatorAssign type parameter std::__cxx11::list > OK +107: StringTestCommon_OperatorAssign type parameter std::__cxx11::list > OK +107: StringTestCommon_Swap type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_Swap type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Swap type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Swap type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Swap type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_Swap type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Swap type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Swap type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Swap type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Swap type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Swap type parameter seqan::String > > OK +107: StringTestCommon_Swap type parameter seqan::String > > OK +107: StringTestCommon_Swap type parameter seqan::String > > OK +107: StringTestCommon_Swap type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_Swap type parameter seqan::String > OK +107: StringTestCommon_Swap type parameter seqan::String > OK +107: StringTestCommon_Swap type parameter seqan::String > OK +107: StringTestCommon_Swap type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_Swap type parameter seqan::String > OK +107: StringTestCommon_Swap type parameter seqan::String > OK +107: StringTestCommon_Swap type parameter seqan::String > OK +107: StringTestCommon_Swap type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_Swap type parameter seqan::String > OK +107: StringTestCommon_Swap type parameter seqan::String > OK +107: StringTestCommon_Swap type parameter seqan::String > OK +107: StringTestCommon_Swap type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Swap type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Swap type parameter std::vector, std::allocator > > OK +107: StringTestCommon_Swap type parameter std::vector > OK +107: StringTestCommon_Swap type parameter std::vector > OK +107: StringTestCommon_Swap type parameter std::vector > OK +107: StringTestCommon_Swap type parameter std::deque, std::allocator > > OK +107: StringTestCommon_Swap type parameter std::deque > OK +107: StringTestCommon_Swap type parameter std::deque > OK +107: StringTestCommon_Swap type parameter std::deque > OK +107: StringTestCommon_Swap type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_Swap type parameter std::forward_list > OK +107: StringTestCommon_Swap type parameter std::forward_list > OK +107: StringTestCommon_Swap type parameter std::forward_list > OK +107: StringTestCommon_Swap type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_Swap type parameter std::__cxx11::list > OK +107: StringTestCommon_Swap type parameter std::__cxx11::list > OK +107: StringTestCommon_Swap type parameter std::__cxx11::list > OK +107: StringTestCommon_Reverse type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_Reverse type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Reverse type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Reverse type parameter seqan::String >, 4194304u, 2u> > > OK +392: DELETING TEMP DIR /tmp/tmpj1jwpwlj 392: Executing test for dfi 392: ====================== 392: -392: dfi /tmp/tmplrfa32yc/datasets/bbe.fa /tmp/tmplrfa32yc/datasets/kjv.fa --support 0.002 --growth 5 -m OK -392: dfi /tmp/tmplrfa32yc/datasets/bbe.fa /tmp/tmplrfa32yc/datasets/kjv.fa --minmax 155 31102 --minmax 1 15551 -m OK -392: dfi /tmp/tmplrfa32yc/datasets/CompWindows.fa /tmp/tmplrfa32yc/datasets/CompNonWindows.fa --support 0.002 --growth 5 -m OK -392: dfi /tmp/tmplrfa32yc/datasets/CompWindows.fa /tmp/tmplrfa32yc/datasets/CompNonWindows.fa --minmax 10 2000 --minmax 1 1500 -m OK -392: dfi /tmp/tmplrfa32yc/datasets/CompWindows.fa /tmp/tmplrfa32yc/datasets/CompNonWindows.fa --support 0.0005 --growth 5 -m OK -392: dfi /tmp/tmplrfa32yc/datasets/CompWindows.fa /tmp/tmplrfa32yc/datasets/CompNonWindows.fa --support 0.001 --growth 5 -m OK -392: dfi /tmp/tmplrfa32yc/datasets/CompWindows.fa /tmp/tmplrfa32yc/datasets/CompNonWindows.fa --support 0.01 --growth 5 -m OK -392: dfi /tmp/tmplrfa32yc/datasets/CompWindows.fa /tmp/tmplrfa32yc/datasets/CompNonWindows.fa --support 0.1 --growth 5 -m OK -392: dfi /tmp/tmplrfa32yc/datasets/CompWindows.fa /tmp/tmplrfa32yc/datasets/CompNonWindows.fa --support 0.5 --growth 5 -m OK -392: dfi /tmp/tmplrfa32yc/datasets/CompWindows.fa /tmp/tmplrfa32yc/datasets/CompNonWindows.fa --support 0.9 --growth 5 -m OK -392: dfi /tmp/tmplrfa32yc/datasets/CompWindows.fa /tmp/tmplrfa32yc/datasets/CompNonWindows.fa --support 1 --growth 5 -m OK -392: dfi /tmp/tmplrfa32yc/datasets/CompWindows.fa /tmp/tmplrfa32yc/datasets/CompNonWindows.fa --support 0.002 --growth 1 -m OK -392: dfi /tmp/tmplrfa32yc/datasets/CompWindows.fa /tmp/tmplrfa32yc/datasets/CompNonWindows.fa --support 0.002 --growth 2 -m OK -392: dfi /tmp/tmplrfa32yc/datasets/CompWindows.fa /tmp/tmplrfa32yc/datasets/CompNonWindows.fa --support 0.002 --growth 5 -m OK -392: dfi /tmp/tmplrfa32yc/datasets/fasta1.fa /tmp/tmplrfa32yc/datasets/fasta2.fa --support 1 --growth 2 OK +392: dfi /tmp/tmpj1jwpwlj/datasets/bbe.fa /tmp/tmpj1jwpwlj/datasets/kjv.fa --support 0.002 --growth 5 -m OK +392: dfi /tmp/tmpj1jwpwlj/datasets/bbe.fa /tmp/tmpj1jwpwlj/datasets/kjv.fa --minmax 155 31102 --minmax 1 15551 -m OK +392: dfi /tmp/tmpj1jwpwlj/datasets/CompWindows.fa /tmp/tmpj1jwpwlj/datasets/CompNonWindows.fa --support 0.002 --growth 5 -m OK +392: dfi /tmp/tmpj1jwpwlj/datasets/CompWindows.fa /tmp/tmpj1jwpwlj/datasets/CompNonWindows.fa --minmax 10 2000 --minmax 1 1500 -m OK +392: dfi /tmp/tmpj1jwpwlj/datasets/CompWindows.fa /tmp/tmpj1jwpwlj/datasets/CompNonWindows.fa --support 0.0005 --growth 5 -m OK +392: dfi /tmp/tmpj1jwpwlj/datasets/CompWindows.fa /tmp/tmpj1jwpwlj/datasets/CompNonWindows.fa --support 0.001 --growth 5 -m OK +392: dfi /tmp/tmpj1jwpwlj/datasets/CompWindows.fa /tmp/tmpj1jwpwlj/datasets/CompNonWindows.fa --support 0.01 --growth 5 -m OK +392: dfi /tmp/tmpj1jwpwlj/datasets/CompWindows.fa /tmp/tmpj1jwpwlj/datasets/CompNonWindows.fa --support 0.1 --growth 5 -m OK +392: dfi /tmp/tmpj1jwpwlj/datasets/CompWindows.fa /tmp/tmpj1jwpwlj/datasets/CompNonWindows.fa --support 0.5 --growth 5 -m OK +392: dfi /tmp/tmpj1jwpwlj/datasets/CompWindows.fa /tmp/tmpj1jwpwlj/datasets/CompNonWindows.fa --support 0.9 --growth 5 -m OK +392: dfi /tmp/tmpj1jwpwlj/datasets/CompWindows.fa /tmp/tmpj1jwpwlj/datasets/CompNonWindows.fa --support 1 --growth 5 -m OK +392: dfi /tmp/tmpj1jwpwlj/datasets/CompWindows.fa /tmp/tmpj1jwpwlj/datasets/CompNonWindows.fa --support 0.002 --growth 1 -m OK +392: dfi /tmp/tmpj1jwpwlj/datasets/CompWindows.fa /tmp/tmpj1jwpwlj/datasets/CompNonWindows.fa --support 0.002 --growth 2 -m OK +392: dfi /tmp/tmpj1jwpwlj/datasets/CompWindows.fa /tmp/tmpj1jwpwlj/datasets/CompNonWindows.fa --support 0.002 --growth 5 -m OK +392: dfi /tmp/tmpj1jwpwlj/datasets/fasta1.fa /tmp/tmpj1jwpwlj/datasets/fasta2.fa --support 1 --growth 2 OK 392: ============================== 392: total tests: 15 392: failed tests: 0 392: successful tests: 15 392: ============================== -415/415 Test #392: app_test_dfi ...................................................................... Passed 63.16 sec +414/415 Test #392: app_test_dfi ...................................................................... Passed 65.59 sec +107: StringTestCommon_Reverse type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_Reverse type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Reverse type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Reverse type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Reverse type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Reverse type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Reverse type parameter seqan::String > > OK +107: StringTestCommon_Reverse type parameter seqan::String > > OK +107: StringTestCommon_Reverse type parameter seqan::String > > OK +107: StringTestCommon_Reverse type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_Reverse type parameter seqan::String > OK +107: StringTestCommon_Reverse type parameter seqan::String > OK +107: StringTestCommon_Reverse type parameter seqan::String > OK +107: StringTestCommon_Reverse type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_Reverse type parameter seqan::String > OK +107: StringTestCommon_Reverse type parameter seqan::String > OK +107: StringTestCommon_Reverse type parameter seqan::String > OK +107: StringTestCommon_Reverse type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_Reverse type parameter seqan::String > OK +107: StringTestCommon_Reverse type parameter seqan::String > OK +107: StringTestCommon_Reverse type parameter seqan::String > OK +107: StringTestCommon_Reverse type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Reverse type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Reverse type parameter std::vector, std::allocator > > OK +107: StringTestCommon_Reverse type parameter std::vector > OK +107: StringTestCommon_Reverse type parameter std::vector > OK +107: StringTestCommon_Reverse type parameter std::vector > OK +107: StringTestCommon_Reverse type parameter std::deque, std::allocator > > OK +107: StringTestCommon_Reverse type parameter std::deque > OK +107: StringTestCommon_Reverse type parameter std::deque > OK +107: StringTestCommon_Reverse type parameter std::deque > OK +107: StringTestCommon_Reverse type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_Reverse type parameter std::forward_list > OK +107: StringTestCommon_Reverse type parameter std::forward_list > OK +107: StringTestCommon_Reverse type parameter std::forward_list > OK +107: StringTestCommon_Reverse type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_Reverse type parameter std::__cxx11::list > OK +107: StringTestCommon_Reverse type parameter std::__cxx11::list > OK +107: StringTestCommon_Reverse type parameter std::__cxx11::list > OK +107: StringTestCommon_AssignValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_AssignValue type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_AssignValue type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_AssignValue type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_AssignValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_AssignValue type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_AssignValue type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_AssignValue type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_AssignValue type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_AssignValue type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_AssignValue type parameter seqan::String > > OK +107: StringTestCommon_AssignValue type parameter seqan::String > > OK +107: StringTestCommon_AssignValue type parameter seqan::String > > OK +107: StringTestCommon_AssignValue type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_AssignValue type parameter seqan::String > OK +107: StringTestCommon_AssignValue type parameter seqan::String > OK +107: StringTestCommon_AssignValue type parameter seqan::String > OK +107: StringTestCommon_AssignValue type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_AssignValue type parameter seqan::String > OK +107: StringTestCommon_AssignValue type parameter seqan::String > OK +107: StringTestCommon_AssignValue type parameter seqan::String > OK +107: StringTestCommon_AssignValue type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_AssignValue type parameter seqan::String > OK +107: StringTestCommon_AssignValue type parameter seqan::String > OK +107: StringTestCommon_AssignValue type parameter seqan::String > OK +107: StringTestCommon_AssignValue type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_AssignValue type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_AssignValue type parameter std::vector, std::allocator > > OK +107: StringTestCommon_AssignValue type parameter std::vector > OK +107: StringTestCommon_AssignValue type parameter std::vector > OK +107: StringTestCommon_AssignValue type parameter std::vector > OK +107: StringTestCommon_AssignValue type parameter std::deque, std::allocator > > OK +107: StringTestCommon_AssignValue type parameter std::deque > OK +107: StringTestCommon_AssignValue type parameter std::deque > OK +107: StringTestCommon_AssignValue type parameter std::deque > OK +107: StringTestCommon_AssignValue type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_AssignValue type parameter std::forward_list > OK +107: StringTestCommon_AssignValue type parameter std::forward_list > OK +107: StringTestCommon_AssignValue type parameter std::forward_list > OK +107: StringTestCommon_AssignValue type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_AssignValue type parameter std::__cxx11::list > OK +107: StringTestCommon_AssignValue type parameter std::__cxx11::list > OK +107: StringTestCommon_AssignValue type parameter std::__cxx11::list > OK +107: StringTestCommon_Append type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_Append type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Append type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Append type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Append type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_Append type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Append type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Append type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Append type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Append type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Append type parameter seqan::String > > OK +107: StringTestCommon_Append type parameter seqan::String > > OK +107: StringTestCommon_Append type parameter seqan::String > > OK +107: StringTestCommon_Append type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_Append type parameter seqan::String > OK +107: StringTestCommon_Append type parameter seqan::String > OK +107: StringTestCommon_Append type parameter seqan::String > OK +107: StringTestCommon_Append type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_Append type parameter seqan::String > OK +107: StringTestCommon_Append type parameter seqan::String > OK +107: StringTestCommon_Append type parameter seqan::String > OK +107: StringTestCommon_Append type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_Append type parameter seqan::String > OK +107: StringTestCommon_Append type parameter seqan::String > OK +107: StringTestCommon_Append type parameter seqan::String > OK +107: StringTestCommon_Append type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Append type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Append type parameter std::vector, std::allocator > > OK +107: StringTestCommon_Append type parameter std::vector > OK +107: StringTestCommon_Append type parameter std::vector > OK +107: StringTestCommon_Append type parameter std::vector > OK +107: StringTestCommon_Append type parameter std::deque, std::allocator > > OK +107: StringTestCommon_Append type parameter std::deque > OK +107: StringTestCommon_Append type parameter std::deque > OK +107: StringTestCommon_Append type parameter std::deque > OK +107: StringTestCommon_Append type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_Append type parameter std::forward_list > OK +107: StringTestCommon_Append type parameter std::forward_list > OK +107: StringTestCommon_Append type parameter std::forward_list > OK +107: StringTestCommon_Append type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_Append type parameter std::__cxx11::list > OK +107: StringTestCommon_Append type parameter std::__cxx11::list > OK +107: StringTestCommon_Append type parameter std::__cxx11::list > OK +107: StringTestCommon_AppendValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_AppendValue type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_AppendValue type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_AppendValue type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_AppendValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_AppendValue type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_AppendValue type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_AppendValue type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_AppendValue type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_AppendValue type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_AppendValue type parameter seqan::String > > OK +107: StringTestCommon_AppendValue type parameter seqan::String > > OK +107: StringTestCommon_AppendValue type parameter seqan::String > > OK +107: StringTestCommon_AppendValue type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_AppendValue type parameter seqan::String > OK +107: StringTestCommon_AppendValue type parameter seqan::String > OK +107: StringTestCommon_AppendValue type parameter seqan::String > OK +107: StringTestCommon_AppendValue type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_AppendValue type parameter seqan::String > OK +107: StringTestCommon_AppendValue type parameter seqan::String > OK +107: StringTestCommon_AppendValue type parameter seqan::String > OK +107: StringTestCommon_AppendValue type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_AppendValue type parameter seqan::String > OK +107: StringTestCommon_AppendValue type parameter seqan::String > OK +107: StringTestCommon_AppendValue type parameter seqan::String > OK +107: StringTestCommon_AppendValue type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_AppendValue type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_AppendValue type parameter std::vector, std::allocator > > OK +107: StringTestCommon_AppendValue type parameter std::vector > OK +107: StringTestCommon_AppendValue type parameter std::vector > OK +107: StringTestCommon_AppendValue type parameter std::vector > OK +107: StringTestCommon_AppendValue type parameter std::deque, std::allocator > > OK +107: StringTestCommon_AppendValue type parameter std::deque > OK +107: StringTestCommon_AppendValue type parameter std::deque > OK +107: StringTestCommon_AppendValue type parameter std::deque > OK +107: StringTestCommon_AppendValue type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_AppendValue type parameter std::forward_list > OK +107: StringTestCommon_AppendValue type parameter std::forward_list > OK +107: StringTestCommon_AppendValue type parameter std::forward_list > OK +107: StringTestCommon_AppendValue type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_AppendValue type parameter std::__cxx11::list > OK +107: StringTestCommon_AppendValue type parameter std::__cxx11::list > OK +107: StringTestCommon_AppendValue type parameter std::__cxx11::list > OK +107: StringTestCommon_Back type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_Back type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Back type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Back type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Back type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_Back type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Back type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Back type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Back type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Back type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Back type parameter seqan::String > > OK +107: StringTestCommon_Back type parameter seqan::String > > OK +107: StringTestCommon_Back type parameter seqan::String > > OK +107: StringTestCommon_Back type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_Back type parameter seqan::String > OK +107: StringTestCommon_Back type parameter seqan::String > OK +107: StringTestCommon_Back type parameter seqan::String > OK +107: StringTestCommon_Back type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_Back type parameter seqan::String > OK +107: StringTestCommon_Back type parameter seqan::String > OK +107: StringTestCommon_Back type parameter seqan::String > OK +107: StringTestCommon_Back type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_Back type parameter seqan::String > OK +107: StringTestCommon_Back type parameter seqan::String > OK +107: StringTestCommon_Back type parameter seqan::String > OK +107: StringTestCommon_Back type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Back type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Back type parameter std::vector, std::allocator > > OK +107: StringTestCommon_Back type parameter std::vector > OK +107: StringTestCommon_Back type parameter std::vector > OK +107: StringTestCommon_Back type parameter std::vector > OK +107: StringTestCommon_Back type parameter std::deque, std::allocator > > OK +107: StringTestCommon_Back type parameter std::deque > OK +107: StringTestCommon_Back type parameter std::deque > OK +107: StringTestCommon_Back type parameter std::deque > OK +107: StringTestCommon_Back type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_Back type parameter std::forward_list > OK +107: StringTestCommon_Back type parameter std::forward_list > OK +107: StringTestCommon_Back type parameter std::forward_list > OK +107: StringTestCommon_Back type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_Back type parameter std::__cxx11::list > OK +107: StringTestCommon_Back type parameter std::__cxx11::list > OK +107: StringTestCommon_Back type parameter std::__cxx11::list > OK +107: StringTestCommon_Begin type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_Begin type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Begin type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Begin type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Begin type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_Begin type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Begin type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Begin type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Begin type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Begin type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Begin type parameter seqan::String > > OK +107: StringTestCommon_Begin type parameter seqan::String > > OK +107: StringTestCommon_Begin type parameter seqan::String > > OK +107: StringTestCommon_Begin type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_Begin type parameter seqan::String > OK +107: StringTestCommon_Begin type parameter seqan::String > OK +107: StringTestCommon_Begin type parameter seqan::String > OK +107: StringTestCommon_Begin type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_Begin type parameter seqan::String > OK +107: StringTestCommon_Begin type parameter seqan::String > OK +107: StringTestCommon_Begin type parameter seqan::String > OK +107: StringTestCommon_Begin type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_Begin type parameter seqan::String > OK +107: StringTestCommon_Begin type parameter seqan::String > OK +107: StringTestCommon_Begin type parameter seqan::String > OK +107: StringTestCommon_Begin type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Begin type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Begin type parameter std::vector, std::allocator > > OK +107: StringTestCommon_Begin type parameter std::vector > OK +107: StringTestCommon_Begin type parameter std::vector > OK +107: StringTestCommon_Begin type parameter std::vector > OK +107: StringTestCommon_Begin type parameter std::deque, std::allocator > > OK +107: StringTestCommon_Begin type parameter std::deque > OK +107: StringTestCommon_Begin type parameter std::deque > OK +107: StringTestCommon_Begin type parameter std::deque > OK +107: StringTestCommon_Begin type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_Begin type parameter std::forward_list > OK +107: StringTestCommon_Begin type parameter std::forward_list > OK +107: StringTestCommon_Begin type parameter std::forward_list > OK +107: StringTestCommon_Begin type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_Begin type parameter std::__cxx11::list > OK +107: StringTestCommon_Begin type parameter std::__cxx11::list > OK +107: StringTestCommon_Begin type parameter std::__cxx11::list > OK +107: StringTestCommon_BeginPosition type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_BeginPosition type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_BeginPosition type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_BeginPosition type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_BeginPosition type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_BeginPosition type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_BeginPosition type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_BeginPosition type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_BeginPosition type parameter seqan::String > > OK +107: StringTestCommon_BeginPosition type parameter seqan::String > > OK +107: StringTestCommon_BeginPosition type parameter seqan::String > > OK +107: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_BeginPosition type parameter seqan::String > OK +107: StringTestCommon_BeginPosition type parameter seqan::String > OK +107: StringTestCommon_BeginPosition type parameter seqan::String > OK +107: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_BeginPosition type parameter seqan::String > OK +107: StringTestCommon_BeginPosition type parameter seqan::String > OK +107: StringTestCommon_BeginPosition type parameter seqan::String > OK +107: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_BeginPosition type parameter seqan::String > OK +107: StringTestCommon_BeginPosition type parameter seqan::String > OK +107: StringTestCommon_BeginPosition type parameter seqan::String > OK +107: StringTestCommon_BeginPosition type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_BeginPosition type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_BeginPosition type parameter std::vector, std::allocator > > OK +107: StringTestCommon_BeginPosition type parameter std::vector > OK +107: StringTestCommon_BeginPosition type parameter std::vector > OK +107: StringTestCommon_BeginPosition type parameter std::vector > OK +107: StringTestCommon_BeginPosition type parameter std::deque, std::allocator > > OK +107: StringTestCommon_BeginPosition type parameter std::deque > OK +107: StringTestCommon_BeginPosition type parameter std::deque > OK +107: StringTestCommon_BeginPosition type parameter std::deque > OK +107: StringTestCommon_BeginPosition type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_BeginPosition type parameter std::forward_list > OK +107: StringTestCommon_BeginPosition type parameter std::forward_list > OK +107: StringTestCommon_BeginPosition type parameter std::forward_list > OK +107: StringTestCommon_BeginPosition type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_BeginPosition type parameter std::__cxx11::list > OK +107: StringTestCommon_BeginPosition type parameter std::__cxx11::list > OK +107: StringTestCommon_BeginPosition type parameter std::__cxx11::list > OK +107: StringTestCommon_Capacity type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_Capacity type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Capacity type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Capacity type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Capacity type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_Capacity type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Capacity type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Capacity type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Capacity type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Capacity type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Capacity type parameter seqan::String > > OK +107: StringTestCommon_Capacity type parameter seqan::String > > OK +107: StringTestCommon_Capacity type parameter seqan::String > > OK +107: StringTestCommon_Capacity type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_Capacity type parameter seqan::String > OK +107: StringTestCommon_Capacity type parameter seqan::String > OK +107: StringTestCommon_Capacity type parameter seqan::String > OK +107: StringTestCommon_Capacity type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_Capacity type parameter seqan::String > OK +107: StringTestCommon_Capacity type parameter seqan::String > OK +107: StringTestCommon_Capacity type parameter seqan::String > OK +107: StringTestCommon_Capacity type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_Capacity type parameter seqan::String > OK +107: StringTestCommon_Capacity type parameter seqan::String > OK +107: StringTestCommon_Capacity type parameter seqan::String > OK +107: StringTestCommon_Capacity type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Capacity type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Capacity type parameter std::vector, std::allocator > > OK +107: StringTestCommon_Capacity type parameter std::vector > OK +107: StringTestCommon_Capacity type parameter std::vector > OK +107: StringTestCommon_Capacity type parameter std::vector > OK +107: StringTestCommon_Capacity type parameter std::deque, std::allocator > > OK +107: StringTestCommon_Capacity type parameter std::deque > OK +107: StringTestCommon_Capacity type parameter std::deque > OK +107: StringTestCommon_Capacity type parameter std::deque > OK +107: StringTestCommon_Capacity type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_Capacity type parameter std::forward_list > OK +107: StringTestCommon_Capacity type parameter std::forward_list > OK +107: StringTestCommon_Capacity type parameter std::forward_list > OK +107: StringTestCommon_Capacity type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_Capacity type parameter std::__cxx11::list > OK +107: StringTestCommon_Capacity type parameter std::__cxx11::list > OK +107: StringTestCommon_Capacity type parameter std::__cxx11::list > OK +107: StringTestCommon_Clear type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_Clear type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Clear type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Clear type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Clear type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_Clear type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Clear type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Clear type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Clear type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Clear type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Clear type parameter seqan::String > > OK +107: StringTestCommon_Clear type parameter seqan::String > > OK +107: StringTestCommon_Clear type parameter seqan::String > > OK +107: StringTestCommon_Clear type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_Clear type parameter seqan::String > OK +107: StringTestCommon_Clear type parameter seqan::String > OK +107: StringTestCommon_Clear type parameter seqan::String > OK +107: StringTestCommon_Clear type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_Clear type parameter seqan::String > OK +107: StringTestCommon_Clear type parameter seqan::String > OK +107: StringTestCommon_Clear type parameter seqan::String > OK +107: StringTestCommon_Clear type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_Clear type parameter seqan::String > OK +107: StringTestCommon_Clear type parameter seqan::String > OK +107: StringTestCommon_Clear type parameter seqan::String > OK +107: StringTestCommon_Clear type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Clear type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Clear type parameter std::vector, std::allocator > > OK +107: StringTestCommon_Clear type parameter std::vector > OK +107: StringTestCommon_Clear type parameter std::vector > OK +107: StringTestCommon_Clear type parameter std::vector > OK +107: StringTestCommon_Clear type parameter std::deque, std::allocator > > OK +107: StringTestCommon_Clear type parameter std::deque > OK +107: StringTestCommon_Clear type parameter std::deque > OK +107: StringTestCommon_Clear type parameter std::deque > OK +107: StringTestCommon_Clear type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_Clear type parameter std::forward_list > OK +107: StringTestCommon_Clear type parameter std::forward_list > OK +107: StringTestCommon_Clear type parameter std::forward_list > OK +107: StringTestCommon_Clear type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_Clear type parameter std::__cxx11::list > OK +107: StringTestCommon_Clear type parameter std::__cxx11::list > OK +107: StringTestCommon_Clear type parameter std::__cxx11::list > OK +107: StringTestCommon_End type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_End type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_End type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_End type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_End type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_End type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_End type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_End type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_End type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_End type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_End type parameter seqan::String > > OK +107: StringTestCommon_End type parameter seqan::String > > OK +107: StringTestCommon_End type parameter seqan::String > > OK +107: StringTestCommon_End type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_End type parameter seqan::String > OK +107: StringTestCommon_End type parameter seqan::String > OK +107: StringTestCommon_End type parameter seqan::String > OK +107: StringTestCommon_End type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_End type parameter seqan::String > OK +107: StringTestCommon_End type parameter seqan::String > OK +107: StringTestCommon_End type parameter seqan::String > OK +107: StringTestCommon_End type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_End type parameter seqan::String > OK +107: StringTestCommon_End type parameter seqan::String > OK +107: StringTestCommon_End type parameter seqan::String > OK +107: StringTestCommon_End type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_End type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_End type parameter std::vector, std::allocator > > OK +107: StringTestCommon_End type parameter std::vector > OK +107: StringTestCommon_End type parameter std::vector > OK +107: StringTestCommon_End type parameter std::vector > OK +107: StringTestCommon_End type parameter std::deque, std::allocator > > OK +107: StringTestCommon_End type parameter std::deque > OK +107: StringTestCommon_End type parameter std::deque > OK +107: StringTestCommon_End type parameter std::deque > OK +107: StringTestCommon_End type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_End type parameter std::forward_list > OK +107: StringTestCommon_End type parameter std::forward_list > OK +107: StringTestCommon_End type parameter std::forward_list > OK +107: StringTestCommon_End type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_End type parameter std::__cxx11::list > OK +107: StringTestCommon_End type parameter std::__cxx11::list > OK +107: StringTestCommon_End type parameter std::__cxx11::list > OK +107: StringTestCommon_EndPosition type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_EndPosition type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_EndPosition type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_EndPosition type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_EndPosition type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_EndPosition type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_EndPosition type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_EndPosition type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_EndPosition type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_EndPosition type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_EndPosition type parameter seqan::String > > OK +107: StringTestCommon_EndPosition type parameter seqan::String > > OK +107: StringTestCommon_EndPosition type parameter seqan::String > > OK +107: StringTestCommon_EndPosition type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_EndPosition type parameter seqan::String > OK +107: StringTestCommon_EndPosition type parameter seqan::String > OK +107: StringTestCommon_EndPosition type parameter seqan::String > OK +107: StringTestCommon_EndPosition type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_EndPosition type parameter seqan::String > OK +107: StringTestCommon_EndPosition type parameter seqan::String > OK +107: StringTestCommon_EndPosition type parameter seqan::String > OK +107: StringTestCommon_EndPosition type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_EndPosition type parameter seqan::String > OK +107: StringTestCommon_EndPosition type parameter seqan::String > OK +107: StringTestCommon_EndPosition type parameter seqan::String > OK +107: StringTestCommon_EndPosition type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_EndPosition type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_EndPosition type parameter std::vector, std::allocator > > OK +107: StringTestCommon_EndPosition type parameter std::vector > OK +107: StringTestCommon_EndPosition type parameter std::vector > OK +107: StringTestCommon_EndPosition type parameter std::vector > OK +107: StringTestCommon_EndPosition type parameter std::deque, std::allocator > > OK +107: StringTestCommon_EndPosition type parameter std::deque > OK +107: StringTestCommon_EndPosition type parameter std::deque > OK +107: StringTestCommon_EndPosition type parameter std::deque > OK +107: StringTestCommon_EndPosition type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_EndPosition type parameter std::forward_list > OK +107: StringTestCommon_EndPosition type parameter std::forward_list > OK +107: StringTestCommon_EndPosition type parameter std::forward_list > OK +107: StringTestCommon_EndPosition type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_EndPosition type parameter std::__cxx11::list > OK +107: StringTestCommon_EndPosition type parameter std::__cxx11::list > OK +107: StringTestCommon_EndPosition type parameter std::__cxx11::list > OK +107: StringTestCommon_Erase type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_Erase type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Erase type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Erase type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Erase type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_Erase type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Erase type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Erase type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Erase type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Erase type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Erase type parameter seqan::String > > OK +107: StringTestCommon_Erase type parameter seqan::String > > OK +107: StringTestCommon_Erase type parameter seqan::String > > OK +107: StringTestCommon_Erase type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_Erase type parameter seqan::String > OK +107: StringTestCommon_Erase type parameter seqan::String > OK +107: StringTestCommon_Erase type parameter seqan::String > OK +107: StringTestCommon_Erase type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_Erase type parameter seqan::String > OK +107: StringTestCommon_Erase type parameter seqan::String > OK +107: StringTestCommon_Erase type parameter seqan::String > OK +107: StringTestCommon_Erase type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_Erase type parameter seqan::String > OK +107: StringTestCommon_Erase type parameter seqan::String > OK +107: StringTestCommon_Erase type parameter seqan::String > OK +107: StringTestCommon_Erase type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Erase type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Erase type parameter std::vector, std::allocator > > OK +107: StringTestCommon_Erase type parameter std::vector > OK +107: StringTestCommon_Erase type parameter std::vector > OK +107: StringTestCommon_Erase type parameter std::vector > OK +107: StringTestCommon_Erase type parameter std::deque, std::allocator > > OK +107: StringTestCommon_Erase type parameter std::deque > OK +107: StringTestCommon_Erase type parameter std::deque > OK +107: StringTestCommon_Erase type parameter std::deque > OK +107: StringTestCommon_Erase type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_Erase type parameter std::forward_list > OK +107: StringTestCommon_Erase type parameter std::forward_list > OK +107: StringTestCommon_Erase type parameter std::forward_list > OK +107: StringTestCommon_Erase type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_Erase type parameter std::__cxx11::list > OK +107: StringTestCommon_Erase type parameter std::__cxx11::list > OK +107: StringTestCommon_Erase type parameter std::__cxx11::list > OK +107: StringTestCommon_EraseBack type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_EraseBack type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_EraseBack type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_EraseBack type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_EraseBack type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_EraseBack type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_EraseBack type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_EraseBack type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_EraseBack type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_EraseBack type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_EraseBack type parameter seqan::String > > OK +107: StringTestCommon_EraseBack type parameter seqan::String > > OK +107: StringTestCommon_EraseBack type parameter seqan::String > > OK +107: StringTestCommon_EraseBack type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_EraseBack type parameter seqan::String > OK +107: StringTestCommon_EraseBack type parameter seqan::String > OK +107: StringTestCommon_EraseBack type parameter seqan::String > OK +107: StringTestCommon_EraseBack type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_EraseBack type parameter seqan::String > OK +107: StringTestCommon_EraseBack type parameter seqan::String > OK +107: StringTestCommon_EraseBack type parameter seqan::String > OK +107: StringTestCommon_EraseBack type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_EraseBack type parameter seqan::String > OK +107: StringTestCommon_EraseBack type parameter seqan::String > OK +107: StringTestCommon_EraseBack type parameter seqan::String > OK +107: StringTestCommon_EraseBack type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_EraseBack type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_EraseBack type parameter std::vector, std::allocator > > OK +107: StringTestCommon_EraseBack type parameter std::vector > OK +107: StringTestCommon_EraseBack type parameter std::vector > OK +107: StringTestCommon_EraseBack type parameter std::vector > OK +107: StringTestCommon_EraseBack type parameter std::deque, std::allocator > > OK +107: StringTestCommon_EraseBack type parameter std::deque > OK +107: StringTestCommon_EraseBack type parameter std::deque > OK +107: StringTestCommon_EraseBack type parameter std::deque > OK +107: StringTestCommon_EraseBack type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_EraseBack type parameter std::forward_list > OK +107: StringTestCommon_EraseBack type parameter std::forward_list > OK +107: StringTestCommon_EraseBack type parameter std::forward_list > OK +107: StringTestCommon_EraseBack type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_EraseBack type parameter std::__cxx11::list > OK +107: StringTestCommon_EraseBack type parameter std::__cxx11::list > OK +107: StringTestCommon_EraseBack type parameter std::__cxx11::list > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String >, 4194304u, 2u> > > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String >, 4194304u, 2u> > > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String >, 4194304u, 2u> > > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String >, unsigned long> > > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String >, unsigned long> > > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String >, unsigned long> > > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String, seqan::Packed > > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String, seqan::Packed > > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String > > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String > > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String > > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String, seqan::Array<100ul> > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String, seqan::Block<4096ul> > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String, seqan::Alloc > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter seqan::String > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::__cxx11::basic_string, std::allocator > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::__cxx11::basic_string, std::allocator > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::vector, std::allocator > > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::vector > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::vector > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::vector > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::deque, std::allocator > > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::deque > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::deque > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::deque > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::forward_list, std::allocator > > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::forward_list > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::forward_list > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::forward_list > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::__cxx11::list, std::allocator > > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::__cxx11::list > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::__cxx11::list > OK +107: 1398 +107: 1400 +107: StringTestCommon_Front type parameter std::__cxx11::list > OK +107: StringTestCommon_GetValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String >, 4194304u, 2u> > > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String >, 4194304u, 2u> > > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String >, 4194304u, 2u> > > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String, seqan::MMap >, unsigned long> > > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String >, unsigned long> > > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String >, unsigned long> > > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String >, unsigned long> > > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String, seqan::Packed > > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String, seqan::Packed > > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String > > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String > > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String > > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String, seqan::Array<100ul> > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String, seqan::Block<4096ul> > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String, seqan::Alloc > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +107: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +107: StringTestCommon_GetValue type parameter std::__cxx11::basic_string, std::allocator > SKIPPED +107: StringTestCommon_GetValue type parameter std::__cxx11::basic_string, std::allocator > SKIPPED +107: StringTestCommon_GetValue type parameter std::vector, std::allocator > > SKIPPED +107: StringTestCommon_GetValue type parameter std::vector > SKIPPED +107: StringTestCommon_GetValue type parameter std::vector > SKIPPED +107: StringTestCommon_GetValue type parameter std::vector > SKIPPED +107: StringTestCommon_GetValue type parameter std::deque, std::allocator > > SKIPPED +107: StringTestCommon_GetValue type parameter std::deque > SKIPPED +107: StringTestCommon_GetValue type parameter std::deque > SKIPPED +107: StringTestCommon_GetValue type parameter std::deque > SKIPPED +107: StringTestCommon_GetValue type parameter std::forward_list, std::allocator > > SKIPPED +107: StringTestCommon_GetValue type parameter std::forward_list > SKIPPED +107: StringTestCommon_GetValue type parameter std::forward_list > SKIPPED +107: StringTestCommon_GetValue type parameter std::forward_list > SKIPPED +107: StringTestCommon_GetValue type parameter std::__cxx11::list, std::allocator > > SKIPPED +107: StringTestCommon_GetValue type parameter std::__cxx11::list > SKIPPED +107: StringTestCommon_GetValue type parameter std::__cxx11::list > SKIPPED +107: StringTestCommon_GetValue type parameter std::__cxx11::list > SKIPPED +107: StringTestCommon_Insert type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_Insert type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Insert type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Insert type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Insert type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_Insert type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Insert type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Insert type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Insert type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Insert type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Insert type parameter seqan::String > > OK +107: StringTestCommon_Insert type parameter seqan::String > > OK +107: StringTestCommon_Insert type parameter seqan::String > > OK +107: StringTestCommon_Insert type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_Insert type parameter seqan::String > OK +107: StringTestCommon_Insert type parameter seqan::String > OK +107: StringTestCommon_Insert type parameter seqan::String > OK +107: StringTestCommon_Insert type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_Insert type parameter seqan::String > OK +107: StringTestCommon_Insert type parameter seqan::String > OK +107: StringTestCommon_Insert type parameter seqan::String > OK +107: StringTestCommon_Insert type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_Insert type parameter seqan::String > OK +107: StringTestCommon_Insert type parameter seqan::String > OK +107: StringTestCommon_Insert type parameter seqan::String > OK +107: StringTestCommon_Insert type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Insert type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Insert type parameter std::vector, std::allocator > > OK +107: StringTestCommon_Insert type parameter std::vector > OK +107: StringTestCommon_Insert type parameter std::vector > OK +107: StringTestCommon_Insert type parameter std::vector > OK +107: StringTestCommon_Insert type parameter std::deque, std::allocator > > OK +107: StringTestCommon_Insert type parameter std::deque > OK +107: StringTestCommon_Insert type parameter std::deque > OK +107: StringTestCommon_Insert type parameter std::deque > OK +107: StringTestCommon_Insert type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_Insert type parameter std::forward_list > OK +107: StringTestCommon_Insert type parameter std::forward_list > OK +107: StringTestCommon_Insert type parameter std::forward_list > OK +107: StringTestCommon_Insert type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_Insert type parameter std::__cxx11::list > OK +107: StringTestCommon_Insert type parameter std::__cxx11::list > OK +107: StringTestCommon_Insert type parameter std::__cxx11::list > OK +107: StringTestCommon_InsertValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_InsertValue type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_InsertValue type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_InsertValue type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_InsertValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_InsertValue type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_InsertValue type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_InsertValue type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_InsertValue type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_InsertValue type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_InsertValue type parameter seqan::String > > OK +107: StringTestCommon_InsertValue type parameter seqan::String > > OK +107: StringTestCommon_InsertValue type parameter seqan::String > > OK +107: StringTestCommon_InsertValue type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_InsertValue type parameter seqan::String > OK +107: StringTestCommon_InsertValue type parameter seqan::String > OK +107: StringTestCommon_InsertValue type parameter seqan::String > OK +107: StringTestCommon_InsertValue type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_InsertValue type parameter seqan::String > OK +107: StringTestCommon_InsertValue type parameter seqan::String > OK +107: StringTestCommon_InsertValue type parameter seqan::String > OK +107: StringTestCommon_InsertValue type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_InsertValue type parameter seqan::String > OK +107: StringTestCommon_InsertValue type parameter seqan::String > OK +107: StringTestCommon_InsertValue type parameter seqan::String > OK +107: StringTestCommon_InsertValue type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_InsertValue type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_InsertValue type parameter std::vector, std::allocator > > OK +107: StringTestCommon_InsertValue type parameter std::vector > OK +107: StringTestCommon_InsertValue type parameter std::vector > OK +107: StringTestCommon_InsertValue type parameter std::vector > OK +107: StringTestCommon_InsertValue type parameter std::deque, std::allocator > > OK +107: StringTestCommon_InsertValue type parameter std::deque > OK +107: StringTestCommon_InsertValue type parameter std::deque > OK +107: StringTestCommon_InsertValue type parameter std::deque > OK +107: StringTestCommon_InsertValue type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_InsertValue type parameter std::forward_list > OK +107: StringTestCommon_InsertValue type parameter std::forward_list > OK +107: StringTestCommon_InsertValue type parameter std::forward_list > OK +107: StringTestCommon_InsertValue type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_InsertValue type parameter std::__cxx11::list > OK +107: StringTestCommon_InsertValue type parameter std::__cxx11::list > OK +107: StringTestCommon_InsertValue type parameter std::__cxx11::list > OK +107: StringTestCommon_Iter type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_Iter type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Iter type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Iter type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Iter type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_Iter type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Iter type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Iter type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Iter type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Iter type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Iter type parameter seqan::String > > OK +107: StringTestCommon_Iter type parameter seqan::String > > OK +107: StringTestCommon_Iter type parameter seqan::String > > OK +107: StringTestCommon_Iter type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_Iter type parameter seqan::String > OK +107: StringTestCommon_Iter type parameter seqan::String > OK +107: StringTestCommon_Iter type parameter seqan::String > OK +107: StringTestCommon_Iter type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_Iter type parameter seqan::String > OK +107: StringTestCommon_Iter type parameter seqan::String > OK +107: StringTestCommon_Iter type parameter seqan::String > OK +107: StringTestCommon_Iter type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_Iter type parameter seqan::String > OK +107: StringTestCommon_Iter type parameter seqan::String > OK +107: StringTestCommon_Iter type parameter seqan::String > OK +107: StringTestCommon_Iter type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Iter type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Iter type parameter std::vector, std::allocator > > OK +107: StringTestCommon_Iter type parameter std::vector > OK +107: StringTestCommon_Iter type parameter std::vector > OK +107: StringTestCommon_Iter type parameter std::vector > OK +107: StringTestCommon_Iter type parameter std::deque, std::allocator > > OK +107: StringTestCommon_Iter type parameter std::deque > OK +107: StringTestCommon_Iter type parameter std::deque > OK +107: StringTestCommon_Iter type parameter std::deque > OK +107: StringTestCommon_Iter type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_Iter type parameter std::forward_list > OK +107: StringTestCommon_Iter type parameter std::forward_list > OK +107: StringTestCommon_Iter type parameter std::forward_list > OK +107: StringTestCommon_Iter type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_Iter type parameter std::__cxx11::list > OK +107: StringTestCommon_Iter type parameter std::__cxx11::list > OK +107: StringTestCommon_Iter type parameter std::__cxx11::list > OK +107: StringTestCommon_Length type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_Length type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Length type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Length type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Length type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_Length type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Length type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Length type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Length type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Length type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Length type parameter seqan::String > > OK +107: StringTestCommon_Length type parameter seqan::String > > OK +107: StringTestCommon_Length type parameter seqan::String > > OK +107: StringTestCommon_Length type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_Length type parameter seqan::String > OK +107: StringTestCommon_Length type parameter seqan::String > OK +107: StringTestCommon_Length type parameter seqan::String > OK +107: StringTestCommon_Length type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_Length type parameter seqan::String > OK +107: StringTestCommon_Length type parameter seqan::String > OK +107: StringTestCommon_Length type parameter seqan::String > OK +107: StringTestCommon_Length type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_Length type parameter seqan::String > OK +107: StringTestCommon_Length type parameter seqan::String > OK +107: StringTestCommon_Length type parameter seqan::String > OK +107: StringTestCommon_Length type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Length type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Length type parameter std::vector, std::allocator > > OK +107: StringTestCommon_Length type parameter std::vector > OK +107: StringTestCommon_Length type parameter std::vector > OK +107: StringTestCommon_Length type parameter std::vector > OK +107: StringTestCommon_Length type parameter std::deque, std::allocator > > OK +107: StringTestCommon_Length type parameter std::deque > OK +107: StringTestCommon_Length type parameter std::deque > OK +107: StringTestCommon_Length type parameter std::deque > OK +107: StringTestCommon_Length type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_Length type parameter std::forward_list > OK +107: StringTestCommon_Length type parameter std::forward_list > OK +107: StringTestCommon_Length type parameter std::forward_list > OK +107: StringTestCommon_Length type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_Length type parameter std::__cxx11::list > OK +107: StringTestCommon_Length type parameter std::__cxx11::list > OK +107: StringTestCommon_Length type parameter std::__cxx11::list > OK +107: StringTestCommon_MoveValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_MoveValue type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_MoveValue type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_MoveValue type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_MoveValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_MoveValue type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_MoveValue type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_MoveValue type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_MoveValue type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_MoveValue type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_MoveValue type parameter seqan::String > > OK +107: StringTestCommon_MoveValue type parameter seqan::String > > OK +107: StringTestCommon_MoveValue type parameter seqan::String > > OK +107: StringTestCommon_MoveValue type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_MoveValue type parameter seqan::String > OK +107: StringTestCommon_MoveValue type parameter seqan::String > OK +107: StringTestCommon_MoveValue type parameter seqan::String > OK +107: StringTestCommon_MoveValue type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_MoveValue type parameter seqan::String > OK +107: StringTestCommon_MoveValue type parameter seqan::String > OK +107: StringTestCommon_MoveValue type parameter seqan::String > OK +107: StringTestCommon_MoveValue type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_MoveValue type parameter seqan::String > OK +107: StringTestCommon_MoveValue type parameter seqan::String > OK +107: StringTestCommon_MoveValue type parameter seqan::String > OK +107: StringTestCommon_MoveValue type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_MoveValue type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_MoveValue type parameter std::vector, std::allocator > > OK +107: StringTestCommon_MoveValue type parameter std::vector > OK +107: StringTestCommon_MoveValue type parameter std::vector > OK +107: StringTestCommon_MoveValue type parameter std::vector > OK +107: StringTestCommon_MoveValue type parameter std::deque, std::allocator > > OK +107: StringTestCommon_MoveValue type parameter std::deque > OK +107: StringTestCommon_MoveValue type parameter std::deque > OK +107: StringTestCommon_MoveValue type parameter std::deque > OK +107: StringTestCommon_MoveValue type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_MoveValue type parameter std::forward_list > OK +107: StringTestCommon_MoveValue type parameter std::forward_list > OK +107: StringTestCommon_MoveValue type parameter std::forward_list > OK +107: StringTestCommon_MoveValue type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_MoveValue type parameter std::__cxx11::list > OK +107: StringTestCommon_MoveValue type parameter std::__cxx11::list > OK +107: StringTestCommon_MoveValue type parameter std::__cxx11::list > OK +107: StringTestCommon_Replace type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_Replace type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Replace type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Replace type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Replace type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_Replace type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Replace type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Replace type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Replace type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Replace type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Replace type parameter seqan::String > > OK +107: StringTestCommon_Replace type parameter seqan::String > > OK +107: StringTestCommon_Replace type parameter seqan::String > > OK +107: StringTestCommon_Replace type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_Replace type parameter seqan::String > OK +107: StringTestCommon_Replace type parameter seqan::String > OK +107: StringTestCommon_Replace type parameter seqan::String > OK +107: StringTestCommon_Replace type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_Replace type parameter seqan::String > OK +107: StringTestCommon_Replace type parameter seqan::String > OK +107: StringTestCommon_Replace type parameter seqan::String > OK +107: StringTestCommon_Replace type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_Replace type parameter seqan::String > OK +107: StringTestCommon_Replace type parameter seqan::String > OK +107: StringTestCommon_Replace type parameter seqan::String > OK +107: StringTestCommon_Replace type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Replace type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Replace type parameter std::vector, std::allocator > > OK +107: StringTestCommon_Replace type parameter std::vector > OK +107: StringTestCommon_Replace type parameter std::vector > OK +107: StringTestCommon_Replace type parameter std::vector > OK +107: StringTestCommon_Replace type parameter std::deque, std::allocator > > OK +107: StringTestCommon_Replace type parameter std::deque > OK +107: StringTestCommon_Replace type parameter std::deque > OK +107: StringTestCommon_Replace type parameter std::deque > OK +107: StringTestCommon_Replace type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_Replace type parameter std::forward_list > OK +107: StringTestCommon_Replace type parameter std::forward_list > OK +107: StringTestCommon_Replace type parameter std::forward_list > OK +107: StringTestCommon_Replace type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_Replace type parameter std::__cxx11::list > OK +107: StringTestCommon_Replace type parameter std::__cxx11::list > OK +107: StringTestCommon_Replace type parameter std::__cxx11::list > OK +107: StringTestCommon_Reserve type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_Reserve type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Reserve type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Reserve type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Reserve type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_Reserve type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Reserve type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Reserve type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Reserve type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Reserve type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Reserve type parameter seqan::String > > OK +107: StringTestCommon_Reserve type parameter seqan::String > > OK +107: StringTestCommon_Reserve type parameter seqan::String > > OK +107: StringTestCommon_Reserve type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_Reserve type parameter seqan::String > OK +107: StringTestCommon_Reserve type parameter seqan::String > OK +107: StringTestCommon_Reserve type parameter seqan::String > OK +107: StringTestCommon_Reserve type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_Reserve type parameter seqan::String > OK +107: StringTestCommon_Reserve type parameter seqan::String > OK +107: StringTestCommon_Reserve type parameter seqan::String > OK +107: StringTestCommon_Reserve type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_Reserve type parameter seqan::String > OK +107: StringTestCommon_Reserve type parameter seqan::String > OK +107: StringTestCommon_Reserve type parameter seqan::String > OK +107: StringTestCommon_Reserve type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Reserve type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Reserve type parameter std::vector, std::allocator > > OK +107: StringTestCommon_Reserve type parameter std::vector > OK +107: StringTestCommon_Reserve type parameter std::vector > OK +107: StringTestCommon_Reserve type parameter std::vector > OK +107: StringTestCommon_Reserve type parameter std::deque, std::allocator > > OK +107: StringTestCommon_Reserve type parameter std::deque > OK +107: StringTestCommon_Reserve type parameter std::deque > OK +107: StringTestCommon_Reserve type parameter std::deque > OK +107: StringTestCommon_Reserve type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_Reserve type parameter std::forward_list > OK +107: StringTestCommon_Reserve type parameter std::forward_list > OK +107: StringTestCommon_Reserve type parameter std::forward_list > OK +107: StringTestCommon_Reserve type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_Reserve type parameter std::__cxx11::list > OK +107: StringTestCommon_Reserve type parameter std::__cxx11::list > OK +107: StringTestCommon_Reserve type parameter std::__cxx11::list > OK +107: StringTestCommon_Resize type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_Resize type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Resize type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Resize type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Resize type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_Resize type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Resize type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Resize type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Resize type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Resize type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Resize type parameter seqan::String > > OK +107: StringTestCommon_Resize type parameter seqan::String > > OK +107: StringTestCommon_Resize type parameter seqan::String > > OK +107: StringTestCommon_Resize type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_Resize type parameter seqan::String > OK +107: StringTestCommon_Resize type parameter seqan::String > OK +107: StringTestCommon_Resize type parameter seqan::String > OK +107: StringTestCommon_Resize type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_Resize type parameter seqan::String > OK +107: StringTestCommon_Resize type parameter seqan::String > OK +107: StringTestCommon_Resize type parameter seqan::String > OK +107: StringTestCommon_Resize type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_Resize type parameter seqan::String > OK +107: StringTestCommon_Resize type parameter seqan::String > OK +107: StringTestCommon_Resize type parameter seqan::String > OK +107: StringTestCommon_Resize type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Resize type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Resize type parameter std::vector, std::allocator > > OK +107: StringTestCommon_Resize type parameter std::vector > OK +107: StringTestCommon_Resize type parameter std::vector > OK +107: StringTestCommon_Resize type parameter std::vector > OK +107: StringTestCommon_Resize type parameter std::deque, std::allocator > > OK +107: StringTestCommon_Resize type parameter std::deque > OK +107: StringTestCommon_Resize type parameter std::deque > OK +107: StringTestCommon_Resize type parameter std::deque > OK +107: StringTestCommon_Resize type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_Resize type parameter std::forward_list > OK +107: StringTestCommon_Resize type parameter std::forward_list > OK +107: StringTestCommon_Resize type parameter std::forward_list > OK +107: StringTestCommon_Resize type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_Resize type parameter std::__cxx11::list > OK +107: StringTestCommon_Resize type parameter std::__cxx11::list > OK +107: StringTestCommon_Resize type parameter std::__cxx11::list > OK +107: StringTestCommon_Value type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +107: StringTestCommon_Value type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Value type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Value type parameter seqan::String >, 4194304u, 2u> > > OK +107: StringTestCommon_Value type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +107: StringTestCommon_Value type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Value type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Value type parameter seqan::String >, unsigned long> > > OK +107: StringTestCommon_Value type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Value type parameter seqan::String, seqan::Packed > > OK +107: StringTestCommon_Value type parameter seqan::String > > OK +107: StringTestCommon_Value type parameter seqan::String > > OK +107: StringTestCommon_Value type parameter seqan::String > > OK +107: StringTestCommon_Value type parameter seqan::String, seqan::Array<100ul> > OK +107: StringTestCommon_Value type parameter seqan::String > OK +107: StringTestCommon_Value type parameter seqan::String > OK +107: StringTestCommon_Value type parameter seqan::String > OK +107: StringTestCommon_Value type parameter seqan::String, seqan::Block<4096ul> > OK +107: StringTestCommon_Value type parameter seqan::String > OK +107: StringTestCommon_Value type parameter seqan::String > OK +107: StringTestCommon_Value type parameter seqan::String > OK +107: StringTestCommon_Value type parameter seqan::String, seqan::Alloc > OK +107: StringTestCommon_Value type parameter seqan::String > OK +107: StringTestCommon_Value type parameter seqan::String > OK +107: StringTestCommon_Value type parameter seqan::String > OK +107: StringTestCommon_Value type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Value type parameter std::__cxx11::basic_string, std::allocator > OK +107: StringTestCommon_Value type parameter std::vector, std::allocator > > OK +107: StringTestCommon_Value type parameter std::vector > OK +107: StringTestCommon_Value type parameter std::vector > OK +107: StringTestCommon_Value type parameter std::vector > OK +107: StringTestCommon_Value type parameter std::deque, std::allocator > > OK +107: StringTestCommon_Value type parameter std::deque > OK +107: StringTestCommon_Value type parameter std::deque > OK +107: StringTestCommon_Value type parameter std::deque > OK +107: StringTestCommon_Value type parameter std::forward_list, std::allocator > > OK +107: StringTestCommon_Value type parameter std::forward_list > OK +107: StringTestCommon_Value type parameter std::forward_list > OK +107: StringTestCommon_Value type parameter std::forward_list > OK +107: StringTestCommon_Value type parameter std::__cxx11::list, std::allocator > > OK +107: StringTestCommon_Value type parameter std::__cxx11::list > OK +107: StringTestCommon_Value type parameter std::__cxx11::list > OK +107: StringTestCommon_Value type parameter std::__cxx11::list > OK +107: ************************************** +107: Total Tests: 1505 +107: Skipped: 43 +107: Errors: 0 +107: ************************************** +415/415 Test #107: test_test_sequence_v2 ............................................................. Passed 81.19 sec 100% tests passed, 0 tests failed out of 415 -Total Test time (real) = 65.39 sec +Total Test time (real) = 82.90 sec make[1]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' - rm -fr -- /tmp/dh-xdg-rundir-MbEFG0SH + rm -fr -- /tmp/dh-xdg-rundir-0k_W3bQ_ create-stamp debian/debhelper-build-stamp dh_prep rm -f -- debian/seqan-apps.substvars debian/libseqan2-dev.substvars @@ -312386,7 +312422,7 @@ make[1]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg' dh_auto_install --indep -B build --destdir=/build/reproducible-path/seqan2-2.4.0+dfsg/debian/libseqan2-dev/ install -m0755 -d /build/reproducible-path/seqan2-2.4.0\+dfsg/debian/libseqan2-dev - cd build && make -j42 install DESTDIR=/build/reproducible-path/seqan2-2.4.0\+dfsg/debian/libseqan2-dev AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" + cd build && make -j40 install DESTDIR=/build/reproducible-path/seqan2-2.4.0\+dfsg/debian/libseqan2-dev AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/build' /usr/bin/cmake -S/build/reproducible-path/seqan2-2.4.0+dfsg -B/build/reproducible-path/seqan2-2.4.0+dfsg/build --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -313135,7 +313171,7 @@ make[1]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg' dh_auto_install -Nlibseqan2-dev install -m0755 -d /build/reproducible-path/seqan2-2.4.0\+dfsg/debian/tmp - cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/seqan2-2.4.0\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j40 install DESTDIR=/build/reproducible-path/seqan2-2.4.0\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/seqan2-2.4.0+dfsg -B/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -313287,8 +313323,8 @@ /usr/bin/gmake -f apps/sak/CMakeFiles/sak_doc.dir/build.make apps/sak/CMakeFiles/sak_doc.dir/build gmake[5]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' Generating README.sak.txt -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sak && ../../bin/sak --export-help=txt > README.sak.txt Generating sak.1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sak && ../../bin/sak --export-help=txt > README.sak.txt cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sak && ../../bin/sak --export-help=man > sak.1 gmake[5]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' Built target sak_doc @@ -313497,44 +313533,44 @@ chmod 0644 -- debian/seqan-apps/usr/share/man/man1/alf.1 mv debian/seqan-apps/usr/share/man/man1/gustaf.1.dh-new debian/seqan-apps/usr/share/man/man1/gustaf.1 chmod 0644 -- debian/seqan-apps/usr/share/man/man1/gustaf.1 - mv debian/seqan-apps/usr/share/man/man1/mason_frag_sequencing.1.dh-new debian/seqan-apps/usr/share/man/man1/mason_frag_sequencing.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/mason_frag_sequencing.1 mv debian/seqan-apps/usr/share/man/man1/insegt.1.dh-new debian/seqan-apps/usr/share/man/man1/insegt.1 chmod 0644 -- debian/seqan-apps/usr/share/man/man1/insegt.1 + mv debian/seqan-apps/usr/share/man/man1/micro_razers.1.dh-new debian/seqan-apps/usr/share/man/man1/micro_razers.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/micro_razers.1 + mv debian/seqan-apps/usr/share/man/man1/mason_frag_sequencing.1.dh-new debian/seqan-apps/usr/share/man/man1/mason_frag_sequencing.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/mason_frag_sequencing.1 mv debian/seqan-apps/usr/share/man/man1/mason_genome.1.dh-new debian/seqan-apps/usr/share/man/man1/mason_genome.1 chmod 0644 -- debian/seqan-apps/usr/share/man/man1/mason_genome.1 - mv debian/seqan-apps/usr/share/man/man1/mason_materializer.1.dh-new debian/seqan-apps/usr/share/man/man1/mason_materializer.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/mason_materializer.1 + mv debian/seqan-apps/usr/share/man/man1/stellar.1.dh-new debian/seqan-apps/usr/share/man/man1/stellar.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/stellar.1 + mv debian/seqan-apps/usr/share/man/man1/seqan_tcoffee.1.dh-new debian/seqan-apps/usr/share/man/man1/seqan_tcoffee.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/seqan_tcoffee.1 + mv debian/seqan-apps/usr/share/man/man1/sak.1.dh-new debian/seqan-apps/usr/share/man/man1/sak.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/sak.1 mv debian/seqan-apps/usr/share/man/man1/mason_methylation.1.dh-new debian/seqan-apps/usr/share/man/man1/mason_methylation.1 chmod 0644 -- debian/seqan-apps/usr/share/man/man1/mason_methylation.1 + mv debian/seqan-apps/usr/share/man/man1/rabema_prepare_sam.1.dh-new debian/seqan-apps/usr/share/man/man1/rabema_prepare_sam.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/rabema_prepare_sam.1 + mv debian/seqan-apps/usr/share/man/man1/tree_recon.1.dh-new debian/seqan-apps/usr/share/man/man1/tree_recon.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/tree_recon.1 + mv debian/seqan-apps/usr/share/man/man1/yara_mapper.1.dh-new debian/seqan-apps/usr/share/man/man1/yara_mapper.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/yara_mapper.1 + mv debian/seqan-apps/usr/share/man/man1/mason_materializer.1.dh-new debian/seqan-apps/usr/share/man/man1/mason_materializer.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/mason_materializer.1 mv debian/seqan-apps/usr/share/man/man1/pair_align.1.dh-new debian/seqan-apps/usr/share/man/man1/pair_align.1 chmod 0644 -- debian/seqan-apps/usr/share/man/man1/pair_align.1 - mv debian/seqan-apps/usr/share/man/man1/micro_razers.1.dh-new debian/seqan-apps/usr/share/man/man1/micro_razers.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/micro_razers.1 - mv debian/seqan-apps/usr/share/man/man1/rabema_build_gold_standard.1.dh-new debian/seqan-apps/usr/share/man/man1/rabema_build_gold_standard.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/rabema_build_gold_standard.1 + mv debian/seqan-apps/usr/share/man/man1/splazers.1.dh-new debian/seqan-apps/usr/share/man/man1/splazers.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/splazers.1 mv debian/seqan-apps/usr/share/man/man1/rabema_evaluate.1.dh-new debian/seqan-apps/usr/share/man/man1/rabema_evaluate.1 chmod 0644 -- debian/seqan-apps/usr/share/man/man1/rabema_evaluate.1 - mv debian/seqan-apps/usr/share/man/man1/rabema_prepare_sam.1.dh-new debian/seqan-apps/usr/share/man/man1/rabema_prepare_sam.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/rabema_prepare_sam.1 - mv debian/seqan-apps/usr/share/man/man1/seqan_tcoffee.1.dh-new debian/seqan-apps/usr/share/man/man1/seqan_tcoffee.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/seqan_tcoffee.1 - mv debian/seqan-apps/usr/share/man/man1/snp_store.1.dh-new debian/seqan-apps/usr/share/man/man1/snp_store.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/snp_store.1 mv debian/seqan-apps/usr/share/man/man1/razers.1.dh-new debian/seqan-apps/usr/share/man/man1/razers.1 chmod 0644 -- debian/seqan-apps/usr/share/man/man1/razers.1 - mv debian/seqan-apps/usr/share/man/man1/splazers.1.dh-new debian/seqan-apps/usr/share/man/man1/splazers.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/splazers.1 - mv debian/seqan-apps/usr/share/man/man1/sak.1.dh-new debian/seqan-apps/usr/share/man/man1/sak.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/sak.1 mv debian/seqan-apps/usr/share/man/man1/razers3.1.dh-new debian/seqan-apps/usr/share/man/man1/razers3.1 chmod 0644 -- debian/seqan-apps/usr/share/man/man1/razers3.1 - mv debian/seqan-apps/usr/share/man/man1/yara_mapper.1.dh-new debian/seqan-apps/usr/share/man/man1/yara_mapper.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/yara_mapper.1 - mv debian/seqan-apps/usr/share/man/man1/tree_recon.1.dh-new debian/seqan-apps/usr/share/man/man1/tree_recon.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/tree_recon.1 - mv debian/seqan-apps/usr/share/man/man1/stellar.1.dh-new debian/seqan-apps/usr/share/man/man1/stellar.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/stellar.1 + mv debian/seqan-apps/usr/share/man/man1/snp_store.1.dh-new debian/seqan-apps/usr/share/man/man1/snp_store.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/snp_store.1 + mv debian/seqan-apps/usr/share/man/man1/rabema_build_gold_standard.1.dh-new debian/seqan-apps/usr/share/man/man1/rabema_build_gold_standard.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/rabema_build_gold_standard.1 mv debian/seqan-apps/usr/share/man/man1/yara_indexer.1.dh-new debian/seqan-apps/usr/share/man/man1/yara_indexer.1 chmod 0644 -- debian/seqan-apps/usr/share/man/man1/yara_indexer.1 make[1]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg' @@ -313544,50 +313580,50 @@ debian/rules override_dh_link-arch make[1]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg' dh_link --arch - rm -f debian/seqan-apps/usr/bin/splazers - ln -s ../lib/seqan/bin/splazers debian/seqan-apps/usr/bin/splazers - rm -f debian/seqan-apps/usr/bin/tree_recon - ln -s ../lib/seqan/bin/tree_recon debian/seqan-apps/usr/bin/tree_recon - rm -f debian/seqan-apps/usr/bin/mason_materializer - ln -s ../lib/seqan/bin/mason_materializer debian/seqan-apps/usr/bin/mason_materializer + rm -f debian/seqan-apps/usr/bin/yara_indexer + ln -s ../lib/seqan/bin/yara_indexer debian/seqan-apps/usr/bin/yara_indexer rm -f debian/seqan-apps/usr/bin/gustaf ln -s ../lib/seqan/bin/gustaf debian/seqan-apps/usr/bin/gustaf - rm -f debian/seqan-apps/usr/bin/razers - ln -s ../lib/seqan/bin/razers debian/seqan-apps/usr/bin/razers - rm -f debian/seqan-apps/usr/bin/razers3 - ln -s ../lib/seqan/bin/razers3 debian/seqan-apps/usr/bin/razers3 - rm -f debian/seqan-apps/usr/bin/rabema_prepare_sam - ln -s ../lib/seqan/bin/rabema_prepare_sam debian/seqan-apps/usr/bin/rabema_prepare_sam + rm -f debian/seqan-apps/usr/bin/snp_store + ln -s ../lib/seqan/bin/snp_store debian/seqan-apps/usr/bin/snp_store rm -f debian/seqan-apps/usr/bin/mason_methylation ln -s ../lib/seqan/bin/mason_methylation debian/seqan-apps/usr/bin/mason_methylation - rm -f debian/seqan-apps/usr/bin/sak - ln -s ../lib/seqan/bin/sak debian/seqan-apps/usr/bin/sak - rm -f debian/seqan-apps/usr/bin/stellar - ln -s ../lib/seqan/bin/stellar debian/seqan-apps/usr/bin/stellar - rm -f debian/seqan-apps/usr/bin/mason_genome - ln -s ../lib/seqan/bin/mason_genome debian/seqan-apps/usr/bin/mason_genome - rm -f debian/seqan-apps/usr/bin/yara_indexer - ln -s ../lib/seqan/bin/yara_indexer debian/seqan-apps/usr/bin/yara_indexer + rm -f debian/seqan-apps/usr/bin/tree_recon + ln -s ../lib/seqan/bin/tree_recon debian/seqan-apps/usr/bin/tree_recon rm -f debian/seqan-apps/usr/bin/rabema_build_gold_standard ln -s ../lib/seqan/bin/rabema_build_gold_standard debian/seqan-apps/usr/bin/rabema_build_gold_standard - rm -f debian/seqan-apps/usr/bin/yara_mapper - ln -s ../lib/seqan/bin/yara_mapper debian/seqan-apps/usr/bin/yara_mapper - rm -f debian/seqan-apps/usr/bin/seqan_tcoffee - ln -s ../lib/seqan/bin/seqan_tcoffee debian/seqan-apps/usr/bin/seqan_tcoffee + rm -f debian/seqan-apps/usr/bin/alf + ln -s ../lib/seqan/bin/alf debian/seqan-apps/usr/bin/alf rm -f debian/seqan-apps/usr/bin/pair_align ln -s ../lib/seqan/bin/pair_align debian/seqan-apps/usr/bin/pair_align + rm -f debian/seqan-apps/usr/bin/seqan_tcoffee + ln -s ../lib/seqan/bin/seqan_tcoffee debian/seqan-apps/usr/bin/seqan_tcoffee + rm -f debian/seqan-apps/usr/bin/yara_mapper + ln -s ../lib/seqan/bin/yara_mapper debian/seqan-apps/usr/bin/yara_mapper rm -f debian/seqan-apps/usr/bin/micro_razers ln -s ../lib/seqan/bin/micro_razers debian/seqan-apps/usr/bin/micro_razers - rm -f debian/seqan-apps/usr/bin/rabema_evaluate - ln -s ../lib/seqan/bin/rabema_evaluate debian/seqan-apps/usr/bin/rabema_evaluate - rm -f debian/seqan-apps/usr/bin/alf - ln -s ../lib/seqan/bin/alf debian/seqan-apps/usr/bin/alf - rm -f debian/seqan-apps/usr/bin/snp_store - ln -s ../lib/seqan/bin/snp_store debian/seqan-apps/usr/bin/snp_store - rm -f debian/seqan-apps/usr/bin/mason_frag_sequencing - ln -s ../lib/seqan/bin/mason_frag_sequencing debian/seqan-apps/usr/bin/mason_frag_sequencing rm -f debian/seqan-apps/usr/bin/insegt ln -s ../lib/seqan/bin/insegt debian/seqan-apps/usr/bin/insegt + rm -f debian/seqan-apps/usr/bin/mason_genome + ln -s ../lib/seqan/bin/mason_genome debian/seqan-apps/usr/bin/mason_genome + rm -f debian/seqan-apps/usr/bin/rabema_prepare_sam + ln -s ../lib/seqan/bin/rabema_prepare_sam debian/seqan-apps/usr/bin/rabema_prepare_sam + rm -f debian/seqan-apps/usr/bin/razers3 + ln -s ../lib/seqan/bin/razers3 debian/seqan-apps/usr/bin/razers3 + rm -f debian/seqan-apps/usr/bin/mason_frag_sequencing + ln -s ../lib/seqan/bin/mason_frag_sequencing debian/seqan-apps/usr/bin/mason_frag_sequencing + rm -f debian/seqan-apps/usr/bin/stellar + ln -s ../lib/seqan/bin/stellar debian/seqan-apps/usr/bin/stellar + rm -f debian/seqan-apps/usr/bin/rabema_evaluate + ln -s ../lib/seqan/bin/rabema_evaluate debian/seqan-apps/usr/bin/rabema_evaluate + rm -f debian/seqan-apps/usr/bin/splazers + ln -s ../lib/seqan/bin/splazers debian/seqan-apps/usr/bin/splazers + rm -f debian/seqan-apps/usr/bin/sak + ln -s ../lib/seqan/bin/sak debian/seqan-apps/usr/bin/sak + rm -f debian/seqan-apps/usr/bin/razers + ln -s ../lib/seqan/bin/razers debian/seqan-apps/usr/bin/razers + rm -f debian/seqan-apps/usr/bin/mason_materializer + ln -s ../lib/seqan/bin/mason_materializer debian/seqan-apps/usr/bin/mason_materializer rm -f debian/seqan-apps/usr/bin/yara_mapper ln -s ../lib/seqan/bin/yara_mapper debian/seqan-apps/usr/bin/yara_mapper rm -f debian/seqan-apps/usr/bin/yara_indexer @@ -313649,9 +313685,9 @@ chmod a-x usr/share/doc/libseqan2-dev/changelog usr/share/doc/libseqan2-dev/changelog.Debian gzip -9nf usr/share/doc/libseqan2-dev/changelog usr/share/doc/libseqan2-dev/changelog.Debian chmod a-x usr/share/doc/seqan-apps/alf/README usr/share/doc/seqan-apps/changelog usr/share/doc/seqan-apps/changelog.Debian usr/share/doc/seqan-apps/dfi/README usr/share/doc/seqan-apps/fiona/example/reads.fa usr/share/doc/seqan-apps/gustaf/README usr/share/doc/seqan-apps/gustaf/example/adeno.fa usr/share/doc/seqan-apps/gustaf/example/adeno_modified.fa usr/share/doc/seqan-apps/insegt/README usr/share/doc/seqan-apps/mason2/README.mason_methylation usr/share/doc/seqan-apps/mason2/README.mason_simulator usr/share/doc/seqan-apps/mason2/README.mason_variator usr/share/doc/seqan-apps/mason2/example/adeno_virus.fa usr/share/doc/seqan-apps/micro_razers/README usr/share/doc/seqan-apps/ngs_roi/README usr/share/doc/seqan-apps/ngs_roi/example/dmel.bed usr/share/doc/seqan-apps/ngs_roi/example/dmel.gtf usr/share/doc/seqan-apps/ngs_roi/example/example.bam usr/share/doc/seqan-apps/rabema/README usr/share/doc/seqan-apps/razers/README usr/share/doc/seqan-apps/razers3/README usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.A00 usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.A01 usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.B00 usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.B01 usr/share/doc/seqan-apps/snp_store/README usr/share/doc/seqan-apps/snp_store/example/exampleGenome.fa usr/share/doc/seqan-apps/splazers/README usr/share/doc/seqan-apps/stellar/README usr/share/doc/seqan-apps/stellar/example/NC_001474.fasta usr/share/doc/seqan-apps/stellar/example/NC_001477.fasta usr/share/doc/seqan-apps/yara/README.rst usr/share/man/man1/alf.1 usr/share/man/man1/gustaf.1 usr/share/man/man1/insegt.1 usr/share/man/man1/mason_frag_sequencing.1 usr/share/man/man1/mason_genome.1 usr/share/man/man1/mason_materializer.1 usr/share/man/man1/mason_methylation.1 usr/share/man/man1/micro_razers.1 usr/share/man/man1/pair_align.1 usr/share/man/man1/rabema_build_gold_standard.1 usr/share/man/man1/rabema_evaluate.1 usr/share/man/man1/rabema_prepare_sam.1 usr/share/man/man1/razers.1 usr/share/man/man1/razers3.1 usr/share/man/man1/sak.1 usr/share/man/man1/seqan_tcoffee.1 usr/share/man/man1/snp_store.1 usr/share/man/man1/splazers.1 usr/share/man/man1/stellar.1 usr/share/man/man1/tree_recon.1 usr/share/man/man1/yara_indexer.1 usr/share/man/man1/yara_mapper.1 - cd '/build/reproducible-path/seqan2-2.4.0+dfsg' gzip -9nf usr/share/doc/seqan-apps/alf/README usr/share/doc/seqan-apps/changelog usr/share/doc/seqan-apps/changelog.Debian usr/share/doc/seqan-apps/dfi/README usr/share/doc/seqan-apps/fiona/example/reads.fa usr/share/doc/seqan-apps/gustaf/README usr/share/doc/seqan-apps/gustaf/example/adeno.fa usr/share/doc/seqan-apps/gustaf/example/adeno_modified.fa usr/share/doc/seqan-apps/insegt/README usr/share/doc/seqan-apps/mason2/README.mason_methylation usr/share/doc/seqan-apps/mason2/README.mason_simulator usr/share/doc/seqan-apps/mason2/README.mason_variator usr/share/doc/seqan-apps/mason2/example/adeno_virus.fa usr/share/doc/seqan-apps/micro_razers/README usr/share/doc/seqan-apps/ngs_roi/README usr/share/doc/seqan-apps/ngs_roi/example/dmel.bed usr/share/doc/seqan-apps/ngs_roi/example/dmel.gtf usr/share/doc/seqan-apps/ngs_roi/example/example.bam usr/share/doc/seqan-apps/rabema/README usr/share/doc/seqan-apps/razers/README usr/share/doc/seqan-apps/razers3/README usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.A00 usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.A01 usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.B00 usr/share/doc/seqan-apps/sgip/example/iso_r01_m200.B01 usr/share/doc/seqan-apps/snp_store/README usr/share/doc/seqan-apps/snp_store/example/exampleGenome.fa usr/share/doc/seqan-apps/splazers/README usr/share/doc/seqan-apps/stellar/README usr/share/doc/seqan-apps/stellar/example/NC_001474.fasta usr/share/doc/seqan-apps/stellar/example/NC_001477.fasta usr/share/doc/seqan-apps/yara/README.rst usr/share/man/man1/alf.1 usr/share/man/man1/gustaf.1 usr/share/man/man1/insegt.1 usr/share/man/man1/mason_frag_sequencing.1 usr/share/man/man1/mason_genome.1 usr/share/man/man1/mason_materializer.1 usr/share/man/man1/mason_methylation.1 usr/share/man/man1/micro_razers.1 usr/share/man/man1/pair_align.1 usr/share/man/man1/rabema_build_gold_standard.1 usr/share/man/man1/rabema_evaluate.1 usr/share/man/man1/rabema_prepare_sam.1 usr/share/man/man1/razers.1 usr/share/man/man1/razers3.1 usr/share/man/man1/sak.1 usr/share/man/man1/seqan_tcoffee.1 usr/share/man/man1/snp_store.1 usr/share/man/man1/splazers.1 usr/share/man/man1/stellar.1 usr/share/man/man1/tree_recon.1 usr/share/man/man1/yara_indexer.1 usr/share/man/man1/yara_mapper.1 cd '/build/reproducible-path/seqan2-2.4.0+dfsg' + cd '/build/reproducible-path/seqan2-2.4.0+dfsg' rm -f debian/seqan-apps.debhelper.log debian/rules override_dh_fixperms-arch make[1]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg' @@ -313680,231 +313716,231 @@ objcopy --compress-debug-sections debian/seqan-apps/usr/lib/debug/.dwz/x86_64-linux-gnu/seqan-apps.debug chmod 0644 -- debian/seqan-apps/usr/lib/debug/.dwz/x86_64-linux-gnu/seqan-apps.debug dh_strip -a - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/13 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/insegt debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/13/4f469a59ef45a8a44f595421d545ddd6767db6.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/13/4f469a59ef45a8a44f595421d545ddd6767db6.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/insegt - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/13/4f469a59ef45a8a44f595421d545ddd6767db6.debug debian/seqan-apps/usr/lib/seqan/bin/insegt - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f6 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/fiona debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f6/f411e4dc031241ee40b02c190404676b43c053.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f6/f411e4dc031241ee40b02c190404676b43c053.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/fiona - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f6/f411e4dc031241ee40b02c190404676b43c053.debug debian/seqan-apps/usr/lib/seqan/bin/fiona install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7b objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/bam2roi debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7b/4039f645283c7f44a97553358a00fe17d34233.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7b/4039f645283c7f44a97553358a00fe17d34233.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/bam2roi objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7b/4039f645283c7f44a97553358a00fe17d34233.debug debian/seqan-apps/usr/lib/seqan/bin/bam2roi - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/40 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/fiona_illumina debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/40/c7c5a9d18a3cbec2f52e564e29692d5eaf6575.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/40/c7c5a9d18a3cbec2f52e564e29692d5eaf6575.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/fiona_illumina - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/40/c7c5a9d18a3cbec2f52e564e29692d5eaf6575.debug debian/seqan-apps/usr/lib/seqan/bin/fiona_illumina - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7c - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7c/208d07a7ecda166df63c9901be9b77e2fed23e.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7c/208d07a7ecda166df63c9901be9b77e2fed23e.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7c/208d07a7ecda166df63c9901be9b77e2fed23e.debug debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cf - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/bisar debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cf/a4680399e785409a01496a0a103ec6a64818c4.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cf/a4680399e785409a01496a0a103ec6a64818c4.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/bisar - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cf/a4680399e785409a01496a0a103ec6a64818c4.debug debian/seqan-apps/usr/lib/seqan/bin/bisar - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/67 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/samcat debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/67/0ca5736035aecc069de1713bc159d9847a2b71.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/67/0ca5736035aecc069de1713bc159d9847a2b71.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/samcat - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/67/0ca5736035aecc069de1713bc159d9847a2b71.debug debian/seqan-apps/usr/lib/seqan/bin/samcat - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ca - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/compute_gain debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ca/3fcf29cc9343ea669ce7bc857227d2e100dd35.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ca/3fcf29cc9343ea669ce7bc857227d2e100dd35.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/compute_gain - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ca/3fcf29cc9343ea669ce7bc857227d2e100dd35.debug debian/seqan-apps/usr/lib/seqan/bin/compute_gain - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/98 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/snp_store debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/98/ea11fb84e808d64972e1927ea038329113e135.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/98/ea11fb84e808d64972e1927ea038329113e135.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/snp_store - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/98/ea11fb84e808d64972e1927ea038329113e135.debug debian/seqan-apps/usr/lib/seqan/bin/snp_store + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/76 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/sam2matrix debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/76/6211179788e12de2245aead92abe39278c374f.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/76/6211179788e12de2245aead92abe39278c374f.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/sam2matrix + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/76/6211179788e12de2245aead92abe39278c374f.debug debian/seqan-apps/usr/lib/seqan/bin/sam2matrix install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e5 objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/s4_join debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e5/0ab27c1fb06cba9ea7e8d5d3ff6aaa27b6e568.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e5/0ab27c1fb06cba9ea7e8d5d3ff6aaa27b6e568.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/s4_join objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e5/0ab27c1fb06cba9ea7e8d5d3ff6aaa27b6e568.debug debian/seqan-apps/usr/lib/seqan/bin/s4_join - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e9 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/alf debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e9/9ec5326fa9457288cfe6a24f6701f649c8dd0b.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e9/9ec5326fa9457288cfe6a24f6701f649c8dd0b.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/alf - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e9/9ec5326fa9457288cfe6a24f6701f649c8dd0b.debug debian/seqan-apps/usr/lib/seqan/bin/alf + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/24 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/param_chooser debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/24/cfb94b1ce79efad10e1c90727dde78fdc09619.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/24/cfb94b1ce79efad10e1c90727dde78fdc09619.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/param_chooser + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/24/cfb94b1ce79efad10e1c90727dde78fdc09619.debug debian/seqan-apps/usr/lib/seqan/bin/param_chooser + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/61 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_materializer debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/61/b9f7367ad163034088d574549ca2bc61521936.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/61/b9f7367ad163034088d574549ca2bc61521936.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_materializer + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/61/b9f7367ad163034088d574549ca2bc61521936.debug debian/seqan-apps/usr/lib/seqan/bin/mason_materializer + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/17 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/razers debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/17/60ad6604691176344d1c0f819628a32272048c.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/17/60ad6604691176344d1c0f819628a32272048c.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/razers + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/17/60ad6604691176344d1c0f819628a32272048c.debug debian/seqan-apps/usr/lib/seqan/bin/razers + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/52 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/roi_feature_projection debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/52/54c216bec038009a3afb6396f074d7ffce75a7.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/52/54c216bec038009a3afb6396f074d7ffce75a7.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/roi_feature_projection + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/52/54c216bec038009a3afb6396f074d7ffce75a7.debug debian/seqan-apps/usr/lib/seqan/bin/roi_feature_projection + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/47 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/sak debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/47/6613c73dd5b4dfbb188db4ef8c8a26ec5051c6.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/47/6613c73dd5b4dfbb188db4ef8c8a26ec5051c6.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/sak + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/47/6613c73dd5b4dfbb188db4ef8c8a26ec5051c6.debug debian/seqan-apps/usr/lib/seqan/bin/sak + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fe + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fe/2c9dae1c0140e2aebf5dddee8ed2857213451b.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fe/2c9dae1c0140e2aebf5dddee8ed2857213451b.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fe/2c9dae1c0140e2aebf5dddee8ed2857213451b.debug debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d2 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/splazers debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d2/6802b167d70b9dac00b08c9e72c2cb52d59501.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d2/6802b167d70b9dac00b08c9e72c2cb52d59501.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/splazers + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d2/6802b167d70b9dac00b08c9e72c2cb52d59501.debug debian/seqan-apps/usr/lib/seqan/bin/splazers install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cb objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/rabema_evaluate debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cb/d1205dfcd5a25c7333c7978cf889ddb97a04da.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cb/d1205dfcd5a25c7333c7978cf889ddb97a04da.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/rabema_evaluate objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cb/d1205dfcd5a25c7333c7978cf889ddb97a04da.debug debian/seqan-apps/usr/lib/seqan/bin/rabema_evaluate + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8d + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/stellar debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8d/5090e5081cd069e49c241ec9ff1c4cfcc59124.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8d/5090e5081cd069e49c241ec9ff1c4cfcc59124.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/stellar + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8d/5090e5081cd069e49c241ec9ff1c4cfcc59124.debug debian/seqan-apps/usr/lib/seqan/bin/stellar + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e8 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_simulator debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e8/a42a2b679cc5978dff8333518f6dace3fb053d.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e8/a42a2b679cc5978dff8333518f6dace3fb053d.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_simulator + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e8/a42a2b679cc5978dff8333518f6dace3fb053d.debug debian/seqan-apps/usr/lib/seqan/bin/mason_simulator + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7c + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7c/208d07a7ecda166df63c9901be9b77e2fed23e.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7c/208d07a7ecda166df63c9901be9b77e2fed23e.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7c/208d07a7ecda166df63c9901be9b77e2fed23e.debug debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/67 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/samcat debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/67/0ca5736035aecc069de1713bc159d9847a2b71.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/67/0ca5736035aecc069de1713bc159d9847a2b71.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/samcat + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/67/0ca5736035aecc069de1713bc159d9847a2b71.debug debian/seqan-apps/usr/lib/seqan/bin/samcat + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/01 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/01/4ffe80c2f80c55206d8bd00a6e6ded6ac4b3ce.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/01/4ffe80c2f80c55206d8bd00a6e6ded6ac4b3ce.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/01/4ffe80c2f80c55206d8bd00a6e6ded6ac4b3ce.debug debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/eb objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_variator debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/eb/7f7a15c33518ffe46e94cff87551f0b884dace.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/eb/7f7a15c33518ffe46e94cff87551f0b884dace.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_variator objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/eb/7f7a15c33518ffe46e94cff87551f0b884dace.debug debian/seqan-apps/usr/lib/seqan/bin/mason_variator + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/27 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/razers3 debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/27/bef0fc49bde7bebf44a86e4a14c0b6e63fa987.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/27/bef0fc49bde7bebf44a86e4a14c0b6e63fa987.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/razers3 + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/27/bef0fc49bde7bebf44a86e4a14c0b6e63fa987.debug debian/seqan-apps/usr/lib/seqan/bin/razers3 + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/69 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/69/b95adcb0a37eaaf1bda5961dec84713c5c389b.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/69/b95adcb0a37eaaf1bda5961dec84713c5c389b.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/69/b95adcb0a37eaaf1bda5961dec84713c5c389b.debug debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f6 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/fiona debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f6/f411e4dc031241ee40b02c190404676b43c053.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f6/f411e4dc031241ee40b02c190404676b43c053.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/fiona + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f6/f411e4dc031241ee40b02c190404676b43c053.debug debian/seqan-apps/usr/lib/seqan/bin/fiona + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/60 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_genome debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/60/7b6f56df30fffad44a824ef226ece06f0eb22e.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/60/7b6f56df30fffad44a824ef226ece06f0eb22e.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_genome + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/60/7b6f56df30fffad44a824ef226ece06f0eb22e.debug debian/seqan-apps/usr/lib/seqan/bin/mason_genome + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/75 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/rep_sep debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/75/89f7a55207194e278a5c3a8fd6d94aa7847dda.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/75/89f7a55207194e278a5c3a8fd6d94aa7847dda.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/rep_sep + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/75/89f7a55207194e278a5c3a8fd6d94aa7847dda.debug debian/seqan-apps/usr/lib/seqan/bin/rep_sep + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/13 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/insegt debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/13/4f469a59ef45a8a44f595421d545ddd6767db6.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/13/4f469a59ef45a8a44f595421d545ddd6767db6.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/insegt + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/13/4f469a59ef45a8a44f595421d545ddd6767db6.debug debian/seqan-apps/usr/lib/seqan/bin/insegt + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/40 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/fiona_illumina debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/40/c7c5a9d18a3cbec2f52e564e29692d5eaf6575.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/40/c7c5a9d18a3cbec2f52e564e29692d5eaf6575.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/fiona_illumina + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/40/c7c5a9d18a3cbec2f52e564e29692d5eaf6575.debug debian/seqan-apps/usr/lib/seqan/bin/fiona_illumina install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f4 objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/micro_razers debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f4/e4d2562092d708641450abb06799cf93a815a9.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f4/e4d2562092d708641450abb06799cf93a815a9.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/micro_razers objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/f4/e4d2562092d708641450abb06799cf93a815a9.debug debian/seqan-apps/usr/lib/seqan/bin/micro_razers - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2a - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/sgip debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2a/41e9a57b9326b79c91a02fd16dd3840b491c45.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2a/41e9a57b9326b79c91a02fd16dd3840b491c45.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/sgip - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2a/41e9a57b9326b79c91a02fd16dd3840b491c45.debug debian/seqan-apps/usr/lib/seqan/bin/sgip - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/01 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/01/4ffe80c2f80c55206d8bd00a6e6ded6ac4b3ce.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/01/4ffe80c2f80c55206d8bd00a6e6ded6ac4b3ce.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/01/4ffe80c2f80c55206d8bd00a6e6ded6ac4b3ce.debug debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ff - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/pair_align debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ff/16d3c0c0a8a08e3f926743229ede3317c27d31.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ff/16d3c0c0a8a08e3f926743229ede3317c27d31.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/pair_align - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ff/16d3c0c0a8a08e3f926743229ede3317c27d31.debug debian/seqan-apps/usr/lib/seqan/bin/pair_align - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2b - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2b/ee2219c47a4bd9f12f71080c445b58973fd7b9.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2b/ee2219c47a4bd9f12f71080c445b58973fd7b9.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2b/ee2219c47a4bd9f12f71080c445b58973fd7b9.debug debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/81 objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/yara_mapper debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/81/59f55ab95cd860d678ea5ccbf7ab78e38408fd.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/81/59f55ab95cd860d678ea5ccbf7ab78e38408fd.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/yara_mapper objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/81/59f55ab95cd860d678ea5ccbf7ab78e38408fd.debug debian/seqan-apps/usr/lib/seqan/bin/yara_mapper + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6d + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_splicing debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6d/7e4ef4f83c9dc469804b87194b3a805df1ca89.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6d/7e4ef4f83c9dc469804b87194b3a805df1ca89.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_splicing + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6d/7e4ef4f83c9dc469804b87194b3a805df1ca89.debug debian/seqan-apps/usr/lib/seqan/bin/mason_splicing + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2b + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2b/ee2219c47a4bd9f12f71080c445b58973fd7b9.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2b/ee2219c47a4bd9f12f71080c445b58973fd7b9.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2b/ee2219c47a4bd9f12f71080c445b58973fd7b9.debug debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ff objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/casbar debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ff/2b94070f80fc732a7e9d104651c277170a2c33.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ff/2b94070f80fc732a7e9d104651c277170a2c33.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/casbar objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ff/2b94070f80fc732a7e9d104651c277170a2c33.debug debian/seqan-apps/usr/lib/seqan/bin/casbar - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/45 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/dfi debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/45/2deb9b66054a3013c3e476a359a2215ac4a71b.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/45/2deb9b66054a3013c3e476a359a2215ac4a71b.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/dfi - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/45/2deb9b66054a3013c3e476a359a2215ac4a71b.debug debian/seqan-apps/usr/lib/seqan/bin/dfi + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ff + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/pair_align debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ff/16d3c0c0a8a08e3f926743229ede3317c27d31.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ff/16d3c0c0a8a08e3f926743229ede3317c27d31.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/pair_align + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ff/16d3c0c0a8a08e3f926743229ede3317c27d31.debug debian/seqan-apps/usr/lib/seqan/bin/pair_align + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7b + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/seqcons2 debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7b/56fb9bfa54837941699a861ec52579a4681a95.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7b/56fb9bfa54837941699a861ec52579a4681a95.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/seqcons2 + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7b/56fb9bfa54837941699a861ec52579a4681a95.debug debian/seqan-apps/usr/lib/seqan/bin/seqcons2 + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e9 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/alf debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e9/9ec5326fa9457288cfe6a24f6701f649c8dd0b.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e9/9ec5326fa9457288cfe6a24f6701f649c8dd0b.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/alf + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e9/9ec5326fa9457288cfe6a24f6701f649c8dd0b.debug debian/seqan-apps/usr/lib/seqan/bin/alf install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/1e objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/rabema_build_gold_standard debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/1e/bcb48438e79e925030a3a66c3028857761d738.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/1e/bcb48438e79e925030a3a66c3028857761d738.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/rabema_build_gold_standard objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/1e/bcb48438e79e925030a3a66c3028857761d738.debug debian/seqan-apps/usr/lib/seqan/bin/rabema_build_gold_standard - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/08 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/yara_indexer debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/08/c52d5ec00cb15dbfe1aec61adf68a2693dd614.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/08/c52d5ec00cb15dbfe1aec61adf68a2693dd614.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/yara_indexer - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/08/c52d5ec00cb15dbfe1aec61adf68a2693dd614.debug debian/seqan-apps/usr/lib/seqan/bin/yara_indexer - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/60 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_genome debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/60/7b6f56df30fffad44a824ef226ece06f0eb22e.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/60/7b6f56df30fffad44a824ef226ece06f0eb22e.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_genome - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/60/7b6f56df30fffad44a824ef226ece06f0eb22e.debug debian/seqan-apps/usr/lib/seqan/bin/mason_genome - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8d - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/stellar debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8d/5090e5081cd069e49c241ec9ff1c4cfcc59124.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8d/5090e5081cd069e49c241ec9ff1c4cfcc59124.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/stellar - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8d/5090e5081cd069e49c241ec9ff1c4cfcc59124.debug debian/seqan-apps/usr/lib/seqan/bin/stellar - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/47 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/sak debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/47/6613c73dd5b4dfbb188db4ef8c8a26ec5051c6.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/47/6613c73dd5b4dfbb188db4ef8c8a26ec5051c6.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/sak - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/47/6613c73dd5b4dfbb188db4ef8c8a26ec5051c6.debug debian/seqan-apps/usr/lib/seqan/bin/sak install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/b1 objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/four2three debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/b1/ac6593724b2c3bf3f90040de62ac5cbcc5ddcc.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/b1/ac6593724b2c3bf3f90040de62ac5cbcc5ddcc.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/four2three objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/b1/ac6593724b2c3bf3f90040de62ac5cbcc5ddcc.debug debian/seqan-apps/usr/lib/seqan/bin/four2three - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6d - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_splicing debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6d/7e4ef4f83c9dc469804b87194b3a805df1ca89.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6d/7e4ef4f83c9dc469804b87194b3a805df1ca89.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_splicing - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6d/7e4ef4f83c9dc469804b87194b3a805df1ca89.debug debian/seqan-apps/usr/lib/seqan/bin/mason_splicing + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fd + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/tree_recon debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fd/93e63aa8d45b4dba847b70959b2ea34f9d7954.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fd/93e63aa8d45b4dba847b70959b2ea34f9d7954.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/tree_recon + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fd/93e63aa8d45b4dba847b70959b2ea34f9d7954.debug debian/seqan-apps/usr/lib/seqan/bin/tree_recon install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/24 objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/fx_bam_coverage debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/24/5f443ff75b4766db8c645207cbe3ebc109078a.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/24/5f443ff75b4766db8c645207cbe3ebc109078a.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/fx_bam_coverage objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/24/5f443ff75b4766db8c645207cbe3ebc109078a.debug debian/seqan-apps/usr/lib/seqan/bin/fx_bam_coverage - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7b - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/seqcons2 debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7b/56fb9bfa54837941699a861ec52579a4681a95.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7b/56fb9bfa54837941699a861ec52579a4681a95.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/seqcons2 - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7b/56fb9bfa54837941699a861ec52579a4681a95.debug debian/seqan-apps/usr/lib/seqan/bin/seqcons2 install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/af objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_methylation debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/af/c74b54a562cae6b84e6011e2e5d8f3edfa4c6a.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/af/c74b54a562cae6b84e6011e2e5d8f3edfa4c6a.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_methylation objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/af/c74b54a562cae6b84e6011e2e5d8f3edfa4c6a.debug debian/seqan-apps/usr/lib/seqan/bin/mason_methylation - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/69 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/69/b95adcb0a37eaaf1bda5961dec84713c5c389b.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/69/b95adcb0a37eaaf1bda5961dec84713c5c389b.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/69/b95adcb0a37eaaf1bda5961dec84713c5c389b.debug debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fe - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fe/2c9dae1c0140e2aebf5dddee8ed2857213451b.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fe/2c9dae1c0140e2aebf5dddee8ed2857213451b.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fe/2c9dae1c0140e2aebf5dddee8ed2857213451b.debug debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/27 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/razers3 debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/27/bef0fc49bde7bebf44a86e4a14c0b6e63fa987.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/27/bef0fc49bde7bebf44a86e4a14c0b6e63fa987.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/razers3 - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/27/bef0fc49bde7bebf44a86e4a14c0b6e63fa987.debug debian/seqan-apps/usr/lib/seqan/bin/razers3 - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/52 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/roi_feature_projection debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/52/54c216bec038009a3afb6396f074d7ffce75a7.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/52/54c216bec038009a3afb6396f074d7ffce75a7.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/roi_feature_projection - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/52/54c216bec038009a3afb6396f074d7ffce75a7.debug debian/seqan-apps/usr/lib/seqan/bin/roi_feature_projection - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/76 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/sam2matrix debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/76/6211179788e12de2245aead92abe39278c374f.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/76/6211179788e12de2245aead92abe39278c374f.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/sam2matrix - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/76/6211179788e12de2245aead92abe39278c374f.debug debian/seqan-apps/usr/lib/seqan/bin/sam2matrix - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/24 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/param_chooser debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/24/cfb94b1ce79efad10e1c90727dde78fdc09619.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/24/cfb94b1ce79efad10e1c90727dde78fdc09619.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/param_chooser - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/24/cfb94b1ce79efad10e1c90727dde78fdc09619.debug debian/seqan-apps/usr/lib/seqan/bin/param_chooser - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/17 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/razers debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/17/60ad6604691176344d1c0f819628a32272048c.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/17/60ad6604691176344d1c0f819628a32272048c.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/razers - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/17/60ad6604691176344d1c0f819628a32272048c.debug debian/seqan-apps/usr/lib/seqan/bin/razers - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/75 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/rep_sep debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/75/89f7a55207194e278a5c3a8fd6d94aa7847dda.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/75/89f7a55207194e278a5c3a8fd6d94aa7847dda.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/rep_sep - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/75/89f7a55207194e278a5c3a8fd6d94aa7847dda.debug debian/seqan-apps/usr/lib/seqan/bin/rep_sep - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/9b - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/gustaf debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/9b/3729356f902fb9631efa40d24a0c8963769a20.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/9b/3729356f902fb9631efa40d24a0c8963769a20.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/gustaf - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/9b/3729356f902fb9631efa40d24a0c8963769a20.debug debian/seqan-apps/usr/lib/seqan/bin/gustaf - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/61 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_materializer debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/61/b9f7367ad163034088d574549ca2bc61521936.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/61/b9f7367ad163034088d574549ca2bc61521936.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_materializer - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/61/b9f7367ad163034088d574549ca2bc61521936.debug debian/seqan-apps/usr/lib/seqan/bin/mason_materializer - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fd - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/tree_recon debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fd/93e63aa8d45b4dba847b70959b2ea34f9d7954.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fd/93e63aa8d45b4dba847b70959b2ea34f9d7954.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/tree_recon - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/fd/93e63aa8d45b4dba847b70959b2ea34f9d7954.debug debian/seqan-apps/usr/lib/seqan/bin/tree_recon + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/45 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/dfi debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/45/2deb9b66054a3013c3e476a359a2215ac4a71b.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/45/2deb9b66054a3013c3e476a359a2215ac4a71b.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/dfi + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/45/2deb9b66054a3013c3e476a359a2215ac4a71b.debug debian/seqan-apps/usr/lib/seqan/bin/dfi + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/98 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/snp_store debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/98/ea11fb84e808d64972e1927ea038329113e135.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/98/ea11fb84e808d64972e1927ea038329113e135.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/snp_store + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/98/ea11fb84e808d64972e1927ea038329113e135.debug debian/seqan-apps/usr/lib/seqan/bin/snp_store install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/93 objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/s4_search debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/93/4838c1145d93419b88f05732dfaeb617055878.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/93/4838c1145d93419b88f05732dfaeb617055878.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/s4_search objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/93/4838c1145d93419b88f05732dfaeb617055878.debug debian/seqan-apps/usr/lib/seqan/bin/s4_search - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d2 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/splazers debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d2/6802b167d70b9dac00b08c9e72c2cb52d59501.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d2/6802b167d70b9dac00b08c9e72c2cb52d59501.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/splazers - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d2/6802b167d70b9dac00b08c9e72c2cb52d59501.debug debian/seqan-apps/usr/lib/seqan/bin/splazers - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e8 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_simulator debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e8/a42a2b679cc5978dff8333518f6dace3fb053d.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e8/a42a2b679cc5978dff8333518f6dace3fb053d.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_simulator - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e8/a42a2b679cc5978dff8333518f6dace3fb053d.debug debian/seqan-apps/usr/lib/seqan/bin/mason_simulator + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ca + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/compute_gain debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ca/3fcf29cc9343ea669ce7bc857227d2e100dd35.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ca/3fcf29cc9343ea669ce7bc857227d2e100dd35.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/compute_gain + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ca/3fcf29cc9343ea669ce7bc857227d2e100dd35.debug debian/seqan-apps/usr/lib/seqan/bin/compute_gain + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cf + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/bisar debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cf/a4680399e785409a01496a0a103ec6a64818c4.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cf/a4680399e785409a01496a0a103ec6a64818c4.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/bisar + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cf/a4680399e785409a01496a0a103ec6a64818c4.debug debian/seqan-apps/usr/lib/seqan/bin/bisar + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/9b + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/gustaf debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/9b/3729356f902fb9631efa40d24a0c8963769a20.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/9b/3729356f902fb9631efa40d24a0c8963769a20.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/gustaf + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/9b/3729356f902fb9631efa40d24a0c8963769a20.debug debian/seqan-apps/usr/lib/seqan/bin/gustaf + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/08 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/yara_indexer debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/08/c52d5ec00cb15dbfe1aec61adf68a2693dd614.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/08/c52d5ec00cb15dbfe1aec61adf68a2693dd614.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/yara_indexer + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/08/c52d5ec00cb15dbfe1aec61adf68a2693dd614.debug debian/seqan-apps/usr/lib/seqan/bin/yara_indexer + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2a + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/sgip debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2a/41e9a57b9326b79c91a02fd16dd3840b491c45.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2a/41e9a57b9326b79c91a02fd16dd3840b491c45.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/sgip + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2a/41e9a57b9326b79c91a02fd16dd3840b491c45.debug debian/seqan-apps/usr/lib/seqan/bin/sgip install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.dwz cp --reflink=auto -a debian/seqan-apps/usr/lib/debug/.dwz/x86_64-linux-gnu debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.dwz rm -fr debian/seqan-apps/usr/lib/debug/.dwz @@ -313916,27 +313952,27 @@ rm -f debian/seqan-apps/DEBIAN/shlibs dh_shlibdeps -a install -m0755 -d debian/seqan-apps/DEBIAN - dpkg-shlibdeps -Tdebian/seqan-apps.substvars debian/seqan-apps/usr/lib/seqan/bin/insegt debian/seqan-apps/usr/lib/seqan/bin/fiona debian/seqan-apps/usr/lib/seqan/bin/bam2roi debian/seqan-apps/usr/lib/seqan/bin/fiona_illumina debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing debian/seqan-apps/usr/lib/seqan/bin/bisar debian/seqan-apps/usr/lib/seqan/bin/samcat debian/seqan-apps/usr/lib/seqan/bin/compute_gain debian/seqan-apps/usr/lib/seqan/bin/snp_store debian/seqan-apps/usr/lib/seqan/bin/s4_join debian/seqan-apps/usr/lib/seqan/bin/alf debian/seqan-apps/usr/lib/seqan/bin/rabema_evaluate debian/seqan-apps/usr/lib/seqan/bin/mason_variator debian/seqan-apps/usr/lib/seqan/bin/micro_razers debian/seqan-apps/usr/lib/seqan/bin/sgip debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining debian/seqan-apps/usr/lib/seqan/bin/pair_align debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee debian/seqan-apps/usr/lib/seqan/bin/yara_mapper debian/seqan-apps/usr/lib/seqan/bin/casbar debian/seqan-apps/usr/lib/seqan/bin/dfi debian/seqan-apps/usr/lib/seqan/bin/rabema_build_gold_standard debian/seqan-apps/usr/lib/seqan/bin/yara_indexer debian/seqan-apps/usr/lib/seqan/bin/mason_genome debian/seqan-apps/usr/lib/seqan/bin/stellar debian/seqan-apps/usr/lib/seqan/bin/sak debian/seqan-apps/usr/lib/seqan/bin/four2three debian/seqan-apps/usr/lib/seqan/bin/mason_splicing debian/seqan-apps/usr/lib/seqan/bin/fx_bam_coverage debian/seqan-apps/usr/lib/seqan/bin/seqcons2 debian/seqan-apps/usr/lib/seqan/bin/mason_methylation debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails debian/seqan-apps/usr/lib/seqan/bin/razers3 debian/seqan-apps/usr/lib/seqan/bin/roi_feature_projection debian/seqan-apps/usr/lib/seqan/bin/sam2matrix debian/seqan-apps/usr/lib/seqan/bin/param_chooser debian/seqan-apps/usr/lib/seqan/bin/razers debian/seqan-apps/usr/lib/seqan/bin/rep_sep debian/seqan-apps/usr/lib/seqan/bin/gustaf debian/seqan-apps/usr/lib/seqan/bin/mason_materializer debian/seqan-apps/usr/lib/seqan/bin/tree_recon debian/seqan-apps/usr/lib/seqan/bin/s4_search debian/seqan-apps/usr/lib/seqan/bin/splazers debian/seqan-apps/usr/lib/seqan/bin/mason_simulator + dpkg-shlibdeps -Tdebian/seqan-apps.substvars debian/seqan-apps/usr/lib/seqan/bin/bam2roi debian/seqan-apps/usr/lib/seqan/bin/sam2matrix debian/seqan-apps/usr/lib/seqan/bin/s4_join debian/seqan-apps/usr/lib/seqan/bin/param_chooser debian/seqan-apps/usr/lib/seqan/bin/mason_materializer debian/seqan-apps/usr/lib/seqan/bin/razers debian/seqan-apps/usr/lib/seqan/bin/roi_feature_projection debian/seqan-apps/usr/lib/seqan/bin/sak debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails debian/seqan-apps/usr/lib/seqan/bin/splazers debian/seqan-apps/usr/lib/seqan/bin/rabema_evaluate debian/seqan-apps/usr/lib/seqan/bin/stellar debian/seqan-apps/usr/lib/seqan/bin/mason_simulator debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing debian/seqan-apps/usr/lib/seqan/bin/samcat debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining debian/seqan-apps/usr/lib/seqan/bin/mason_variator debian/seqan-apps/usr/lib/seqan/bin/razers3 debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam debian/seqan-apps/usr/lib/seqan/bin/fiona debian/seqan-apps/usr/lib/seqan/bin/mason_genome debian/seqan-apps/usr/lib/seqan/bin/rep_sep debian/seqan-apps/usr/lib/seqan/bin/insegt debian/seqan-apps/usr/lib/seqan/bin/fiona_illumina debian/seqan-apps/usr/lib/seqan/bin/micro_razers debian/seqan-apps/usr/lib/seqan/bin/yara_mapper debian/seqan-apps/usr/lib/seqan/bin/mason_splicing debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee debian/seqan-apps/usr/lib/seqan/bin/casbar debian/seqan-apps/usr/lib/seqan/bin/pair_align debian/seqan-apps/usr/lib/seqan/bin/seqcons2 debian/seqan-apps/usr/lib/seqan/bin/alf debian/seqan-apps/usr/lib/seqan/bin/rabema_build_gold_standard debian/seqan-apps/usr/lib/seqan/bin/four2three debian/seqan-apps/usr/lib/seqan/bin/tree_recon debian/seqan-apps/usr/lib/seqan/bin/fx_bam_coverage debian/seqan-apps/usr/lib/seqan/bin/mason_methylation debian/seqan-apps/usr/lib/seqan/bin/dfi debian/seqan-apps/usr/lib/seqan/bin/snp_store debian/seqan-apps/usr/lib/seqan/bin/s4_search debian/seqan-apps/usr/lib/seqan/bin/compute_gain debian/seqan-apps/usr/lib/seqan/bin/bisar debian/seqan-apps/usr/lib/seqan/bin/gustaf debian/seqan-apps/usr/lib/seqan/bin/yara_indexer debian/seqan-apps/usr/lib/seqan/bin/sgip dh_installdeb install -m0755 -d debian/seqan-apps/DEBIAN install -m0755 -d debian/libseqan2-dev/DEBIAN dh_gencontrol - install -m0755 -d debian/libseqan2-dev/DEBIAN - echo misc:Depends= >> debian/libseqan2-dev.substvars - echo misc:Pre-Depends= >> debian/libseqan2-dev.substvars - dpkg-gencontrol -plibseqan2-dev -ldebian/changelog -Tdebian/libseqan2-dev.substvars -cdebian/control -Pdebian/libseqan2-dev install -m0755 -d debian/seqan-apps/DEBIAN echo misc:Depends= >> debian/seqan-apps.substvars echo misc:Pre-Depends= >> debian/seqan-apps.substvars install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/DEBIAN dpkg-gencontrol -pseqan-apps -ldebian/changelog -Tdebian/seqan-apps.substvars -cdebian/control -Pdebian/.debhelper/seqan-apps/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=seqan-apps-dbgsym -DDepends="seqan-apps (= \${binary:Version})" -DDescription="debug symbols for seqan-apps" -DBuild-Ids="014ffe80c2f80c55206d8bd00a6e6ded6ac4b3ce 08c52d5ec00cb15dbfe1aec61adf68a2693dd614 134f469a59ef45a8a44f595421d545ddd6767db6 1760ad6604691176344d1c0f819628a32272048c 1ebcb48438e79e925030a3a66c3028857761d738 245f443ff75b4766db8c645207cbe3ebc109078a 24cfb94b1ce79efad10e1c90727dde78fdc09619 27bef0fc49bde7bebf44a86e4a14c0b6e63fa987 2a41e9a57b9326b79c91a02fd16dd3840b491c45 2bee2219c47a4bd9f12f71080c445b58973fd7b9 40c7c5a9d18a3cbec2f52e564e29692d5eaf6575 452deb9b66054a3013c3e476a359a2215ac4a71b 476613c73dd5b4dfbb188db4ef8c8a26ec5051c6 5254c216bec038009a3afb6396f074d7ffce75a7 607b6f56df30fffad44a824ef226ece06f0eb22e 61b9f7367ad163034088d574549ca2bc61521936 670ca5736035aecc069de1713bc159d9847a2b71 69b95adcb0a37eaaf1bda5961dec84713c5c389b 6d7e4ef4f83c9dc469804b87194b3a805df1ca89 7589f7a55207194e278a5c3a8fd6d94aa7847dda 766211179788e12de2245aead92abe39278c374f 7b4039f645283c7f44a97553358a00fe17d34233 7b56fb9bfa54837941699a861ec52579a4681a95 7c208d07a7ecda166df63c9901be9b77e2fed23e 8159f55ab95cd860d678ea5ccbf7ab78e38408fd 8d5090e5081cd069e49c241ec9ff1c4cfcc59124 934838c1145d93419b88f05732dfaeb617055878 98ea11fb84e808d64972e1927ea038329113e135 9b3729356f902fb9631efa40d24a0c8963769a20 afc74b54a562cae6b84e6011e2e5d8f3edfa4c6a b1ac6593724b2c3bf3f90040de62ac5cbcc5ddcc ca3fcf29cc9343ea669ce7bc857227d2e100dd35 cbd1205dfcd5a25c7333c7978cf889ddb97a04da cfa4680399e785409a01496a0a103ec6a64818c4 d26802b167d70b9dac00b08c9e72c2cb52d59501 e50ab27c1fb06cba9ea7e8d5d3ff6aaa27b6e568 e8a42a2b679cc5978dff8333518f6dace3fb053d e99ec5326fa9457288cfe6a24f6701f649c8dd0b eb7f7a15c33518ffe46e94cff87551f0b884dace f4e4d2562092d708641450abb06799cf93a815a9 f6f411e4dc031241ee40b02c190404676b43c053 fd93e63aa8d45b4dba847b70959b2ea34f9d7954 fe2c9dae1c0140e2aebf5dddee8ed2857213451b ff16d3c0c0a8a08e3f926743229ede3317c27d31 ff2b94070f80fc732a7e9d104651c277170a2c33" -DSection=debug -UMulti-Arch -UReplaces -UBreaks - chmod 0644 -- debian/libseqan2-dev/DEBIAN/control + install -m0755 -d debian/libseqan2-dev/DEBIAN + echo misc:Depends= >> debian/libseqan2-dev.substvars + echo misc:Pre-Depends= >> debian/libseqan2-dev.substvars + dpkg-gencontrol -plibseqan2-dev -ldebian/changelog -Tdebian/libseqan2-dev.substvars -cdebian/control -Pdebian/libseqan2-dev chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/DEBIAN/control dpkg-gencontrol -pseqan-apps -ldebian/changelog -Tdebian/seqan-apps.substvars -cdebian/control -Pdebian/seqan-apps + chmod 0644 -- debian/libseqan2-dev/DEBIAN/control chmod 0644 -- debian/seqan-apps/DEBIAN/control dh_md5sums - install -m0755 -d debian/seqan-apps/DEBIAN install -m0755 -d debian/libseqan2-dev/DEBIAN + install -m0755 -d debian/seqan-apps/DEBIAN cd debian/seqan-apps >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/libseqan2-dev >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/libseqan2-dev/DEBIAN/md5sums @@ -313948,9 +313984,9 @@ dpkg-deb --root-owner-group --build debian/seqan-apps .. dpkg-deb --root-owner-group --build debian/.debhelper/seqan-apps/dbgsym-root .. dpkg-deb --root-owner-group --build debian/libseqan2-dev .. -dpkg-deb: building package 'seqan-apps-dbgsym' in '../seqan-apps-dbgsym_2.4.0+dfsg-16_amd64.deb'. -dpkg-deb: building package 'seqan-apps' in '../seqan-apps_2.4.0+dfsg-16_amd64.deb'. dpkg-deb: building package 'libseqan2-dev' in '../libseqan2-dev_2.4.0+dfsg-16_all.deb'. +dpkg-deb: building package 'seqan-apps' in '../seqan-apps_2.4.0+dfsg-16_amd64.deb'. +dpkg-deb: building package 'seqan-apps-dbgsym' in '../seqan-apps-dbgsym_2.4.0+dfsg-16_amd64.deb'. dpkg-genbuildinfo --build=binary -O../seqan2_2.4.0+dfsg-16_amd64.buildinfo dpkg-genchanges --build=binary -O../seqan2_2.4.0+dfsg-16_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -313958,12 +313994,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/770950/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/770950/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/3884016 and its subdirectories -I: Current time: Fri Oct 30 15:49:36 -12 2026 -I: pbuilder-time-stamp: 1793418576 +I: removing directory /srv/workspace/pbuilder/770950 and its subdirectories +I: Current time: Sun Sep 28 13:51:37 +14 2025 +I: pbuilder-time-stamp: 1759017097