Diff of the two buildlogs: -- --- b1/build.log 2024-07-16 11:48:41.387220027 +0000 +++ b2/build.log 2024-07-16 11:52:24.433750423 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Mon Jul 15 23:45:56 -12 2024 -I: pbuilder-time-stamp: 1721130356 +I: Current time: Wed Jul 17 01:48:54 +14 2024 +I: pbuilder-time-stamp: 1721130534 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -32,52 +32,84 @@ dpkg-source: info: applying do_not_corrupt_output.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/9772/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1317/tmp/hooks/D01_modify_environment starting +debug: Running on virt32a. +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 Jul 16 11:49 /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/1317/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1317/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='armhf' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='armhf' + 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]="2" [2]="21" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") + BASH_VERSION='5.2.21(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=armhf + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4 ' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=arm + HOST_ARCH=armhf IFS=' ' - INVOCATION_ID='13893b8b5468403193b3ea697fb162b3' - 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='9772' - PS1='# ' - PS2='> ' + INVOCATION_ID=42222487fbb94510a4c863642b05fe82 + LANG=C + LANGUAGE=it_CH:it + LC_ALL=C + MACHTYPE=arm-unknown-linux-gnueabihf + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnueabihf + 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=1317 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.iNzQFFqc/pbuilderrc_vNCQ --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.iNzQFFqc/b1 --logfile b1/build.log bamtools_2.5.2+dfsg-6.dsc' - SUDO_GID='110' - SUDO_UID='103' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://10.0.0.15:3142/' + 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.iNzQFFqc/pbuilderrc_ZVa2 --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.iNzQFFqc/b2 --logfile b2/build.log bamtools_2.5.2+dfsg-6.dsc' + SUDO_GID=113 + SUDO_UID=107 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://10.0.0.15:3142/ I: uname -a - Linux virt64z 6.1.0-22-arm64 #1 SMP Debian 6.1.94-1 (2024-06-21) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-22-armmp-lpae #1 SMP Debian 6.1.94-1 (2024-06-21) armv7l GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 5 22:35 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/9772/tmp/hooks/D02_print_environment finished +I: user script /srv/workspace/pbuilder/1317/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -195,7 +227,7 @@ Get: 66 http://deb.debian.org/debian trixie/main armhf pkgconf-bin armhf 1.8.1-3 [29.1 kB] Get: 67 http://deb.debian.org/debian trixie/main armhf pkgconf armhf 1.8.1-3 [26.1 kB] Get: 68 http://deb.debian.org/debian trixie/main armhf zlib1g-dev armhf 1:1.3.dfsg+really1.3.1-1 [904 kB] -Fetched 78.0 MB in 1s (108 MB/s) +Fetched 78.0 MB in 2s (42.0 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package liblocale-gettext-perl. (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 ... 19407 files and directories currently installed.) @@ -482,7 +514,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/bamtools-2.5.2+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 > ../bamtools_2.5.2+dfsg-6_source.changes +I: user script /srv/workspace/pbuilder/1317/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/1317/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/bamtools-2.5.2+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 > ../bamtools_2.5.2+dfsg-6_source.changes dpkg-buildpackage: info: source package bamtools dpkg-buildpackage: info: source version 2.5.2+dfsg-6 dpkg-buildpackage: info: source distribution unstable @@ -526,7 +562,7 @@ -- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY - Success -- Performing Test COMPILER_HAS_DEPRECATED_ATTR -- Performing Test COMPILER_HAS_DEPRECATED_ATTR - Success --- Configuring done (1.6s) +-- Configuring done (1.9s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: @@ -587,18 +623,18 @@ Searching for files to exclude Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/utils -Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam -Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index -Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/sam Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io +Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/sam +Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index +Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam Searching INPUT for files to process... Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/utils -Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam -Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index -Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/sam Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io +Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/sam +Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index +Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam Searching for files in directory /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/algorithms Reading and parsing tag files Parsing files @@ -835,7 +871,7 @@ finished... make[1]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg' dh_auto_build -Nlibbamtools-doc - cd obj-arm-linux-gnueabihf && make -j3 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-arm-linux-gnueabihf && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/reproducible-path/bamtools-2.5.2+dfsg -B/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/CMakeFiles /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks @@ -849,16 +885,18 @@ cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bamtools-2.5.2+dfsg /build/reproducible-path/bamtools-2.5.2+dfsg/src /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src/CMakeFiles/BamTools_static.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf' -make -f src/CMakeFiles/BamTools.dir/build.make src/CMakeFiles/BamTools.dir/build make -f src/CMakeFiles/BamTools_static.dir/build.make src/CMakeFiles/BamTools_static.dir/build +make -f src/CMakeFiles/BamTools.dir/build.make src/CMakeFiles/BamTools.dir/build make[3]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf' make[3]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf' -[ 2%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o -[ 2%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o -[ 3%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o -MF CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp +[ 4%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o +[ 4%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o +[ 4%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o +[ 4%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o -MF CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlignment.cpp +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o -MF CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o -MF CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlignment.cpp +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o -MF CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp In file included from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiMerger_p.h:32, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.h:29, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp:16: @@ -878,14 +916,6 @@ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 4%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamReader.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamReader.cpp.o -MF CMakeFiles/BamTools.dir/api/BamReader.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamReader.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamReader.cpp -[ 5%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o -MF CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp -[ 6%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamWriter.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamWriter.cpp.o -MF CMakeFiles/BamTools.dir/api/BamWriter.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamWriter.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamWriter.cpp -[ 7%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamHeader.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamHeader.cpp.o -MF CMakeFiles/BamTools.dir/api/SamHeader.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamHeader.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamHeader.cpp In file included from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiMerger_p.h:32, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.h:29, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp:16: @@ -905,34 +935,44 @@ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 8%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamProgram.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamProgram.cpp.o -MF CMakeFiles/BamTools.dir/api/SamProgram.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamProgram.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamProgram.cpp -[ 9%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o +[ 5%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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src/CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o -MF CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamReadGroup.cpp -[ 12%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamWriter.cpp.o +[ 6%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamReader.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamReader.cpp.o -MF CMakeFiles/BamTools.dir/api/BamReader.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamReader.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamReader.cpp +[ 7%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamWriter.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamWriter.cpp.o -MF CMakeFiles/BamTools.dir/api/BamWriter.cpp.o.d -o 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/build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamHeader.cpp -[ 15%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamSequence.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamSequence.cpp.o -MF CMakeFiles/BamTools.dir/api/SamSequence.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamSequence.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamSequence.cpp -[ 16%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o -MF CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamSequenceDictionary.cpp -[ 17%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o +[ 10%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamHeader.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamHeader.cpp.o -MF CMakeFiles/BamTools.dir/api/SamHeader.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamHeader.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamHeader.cpp +[ 11%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamProgram.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamProgram.cpp.o -MF CMakeFiles/BamTools.dir/api/SamProgram.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamProgram.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamProgram.cpp +[ 12%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o cd 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/usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamProgramChain.cpp -[ 19%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE 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-D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamRandomAccessController_p.cpp In file included from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiMerger_p.h:32, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.h:29, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.cpp:10: @@ -953,26 +993,24 @@ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 22%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamReadGroupDictionary.cpp -[ 23%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o -c 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CXX object src/CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamSequenceDictionary.cpp -[ 27%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamWriter_p.cpp -[ 28%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/index/BamIndexFactory_p.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/index/BamIndexFactory_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/index/BamIndexFactory_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/index/BamIndexFactory_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamIndexFactory_p.cpp -[ 29%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/index/BamStandardIndex_p.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/index/BamStandardIndex_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/index/BamStandardIndex_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/index/BamStandardIndex_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp -[ 30%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/index/BamToolsIndex_p.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/index/BamToolsIndex_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/index/BamToolsIndex_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/index/BamToolsIndex_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp -[ 31%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamHeader_p.cpp +[ 24%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamReader_p.cpp +[ 25%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamSequence.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamSequence.cpp.o -MF CMakeFiles/BamTools.dir/api/SamSequence.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamSequence.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/SamSequence.cpp +[ 26%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o +cd 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/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamIndexFactory_p.cpp +[ 29%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp +[ 30%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamHeader_p.cpp +[ 31%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp +[ 32%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/BamDeviceFactory_p.cpp In file included from /usr/include/c++/13/bits/stl_algo.h:61, from /usr/include/c++/13/algorithm:61, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:18: @@ -1008,6 +1046,8 @@ 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 +[ 33%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/BamFile_p.cpp In file included from /usr/include/c++/13/vector:72, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.h:27, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:10: @@ -1015,6 +1055,26 @@ /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ +In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', + inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/include/c++/13/bits/stl_algo.h:4861:18, + inlined from 'void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:880:9: +/usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 + 1947 | std::__introsort_loop(__first, __last, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ + 1948 | std::__lg(__last - __first) * 2, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1949 | __comp); + | ~~~~~~~ +In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', + inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/13/bits/stl_algo.h:1950:31, + inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/include/c++/13/bits/stl_algo.h:4861:18, + inlined from 'void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:880:9: +/usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 + 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 + 1864 | std::__insertion_sort(__first, __last, __comp); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator]', inlined from 'void BamTools::Internal::BamToolsIndex::ReadBlocks(const BamTools::Internal::BtiReferenceSummary&, BamTools::Internal::BtiBlockVector&)' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:589:25: @@ -1031,6 +1091,13 @@ /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/13/vector:72, + from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.h:28, + from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10: +/usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const BamTools::Internal::BaiAlignmentChunk&}; _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator]': +/usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 + 445 | vector<_Tp, _Alloc>:: + | ^~~~~~~~~~~~~~~~~~~ In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator]', inlined from 'virtual bool BamTools::Internal::BamToolsIndex::Create()' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:206:46: /usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 @@ -1046,33 +1113,6 @@ /usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1292 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', - inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/include/c++/13/bits/stl_algo.h:4861:18, - inlined from 'void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:880:9: -/usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 - 1947 | std::__introsort_loop(__first, __last, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ - 1948 | std::__lg(__last - __first) * 2, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1949 | __comp); - | ~~~~~~~ -In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', - inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/13/bits/stl_algo.h:1950:31, - inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/include/c++/13/bits/stl_algo.h:4861:18, - inlined from 'void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:880:9: -/usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 - 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 - 1864 | std::__insertion_sort(__first, __last, __comp); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/13/vector:72, - from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.h:28, - from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10: -/usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const BamTools::Internal::BaiAlignmentChunk&}; _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator]': -/usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 - 445 | vector<_Tp, _Alloc>:: - | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator]', inlined from 'void BamTools::Internal::BamStandardIndex::MergeAlignmentChunks(BamTools::Internal::BaiAlignmentChunkVector&)' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:634:27: @@ -1084,8 +1124,8 @@ /usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1292 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -[ 32%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamDeviceFactory_p.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/BamDeviceFactory_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/BamDeviceFactory_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/BamDeviceFactory_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/BamDeviceFactory_p.cpp +[ 34%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/BamFtp_p.cpp In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator]', inlined from 'void BamTools::Internal::BamStandardIndex::SaveAlignmentChunkToBin(BamTools::Internal::BaiBinMap&, const uint32_t&, const uint64_t&, const uint64_t&)' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:813:28: /usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 @@ -1100,15 +1140,15 @@ /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ +[ 35%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.cpp In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void BamTools::Internal::BamStandardIndex::SaveLinearOffsetEntry(BamTools::Internal::BaiLinearOffsetVector&, const int&, const int&, const uint64_t&)' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:837:23: /usr/include/c++/13/bits/stl_vector.h:1037:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1037 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 33%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.cpp -[ 34%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/BamFile_p.cpp +[ 36%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamHttp_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamHttp_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamHttp_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamHttp_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/BamHttp_p.cpp /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {long long int}; _Tp = long long int; _Alloc = std::allocator]': /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: @@ -1159,52 +1199,63 @@ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 35%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamFtp_p.cpp.o +[ 37%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/BamPipe_p.cpp +[ 38%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/BgzfStream_p.cpp +[ 39%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/ByteArray_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time 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src/CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/HttpHeader_p.cpp +[ 43%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/ILocalIODevice_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT 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src/CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/RollingBuffer_p.cpp +[ 45%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/TcpSocketEngine_p.cpp +[ 46%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocket_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT 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src/CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/utils/BamException_p.cpp +[ 54%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT 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-std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp In file included from /usr/include/c++/13/bits/stl_algo.h:61, from /usr/include/c++/13/algorithm:61, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:18: @@ -1240,9 +1291,44 @@ 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 -[ 59%] Linking CXX shared library libbamtools.so -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libbamtools.so.2.5.2 -o libbamtools.so.2.5.2 CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o CMakeFiles/BamTools.dir/api/BamReader.cpp.o CMakeFiles/BamTools.dir/api/BamWriter.cpp.o CMakeFiles/BamTools.dir/api/SamHeader.cpp.o CMakeFiles/BamTools.dir/api/SamProgram.cpp.o CMakeFiles/BamTools.dir/api/SamProgramChain.cpp.o CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o CMakeFiles/BamTools.dir/api/SamReadGroupDictionary.cpp.o CMakeFiles/BamTools.dir/api/SamSequence.cpp.o CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o CMakeFiles/BamTools.dir/api/internal/bam/BamReader_p.cpp.o CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o CMakeFiles/BamTools.dir/api/internal/index/BamIndexFactory_p.cpp.o CMakeFiles/BamTools.dir/api/internal/index/BamStandardIndex_p.cpp.o CMakeFiles/BamTools.dir/api/internal/index/BamToolsIndex_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamDeviceFactory_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamFtp_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamHttp_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -lz +In file included from /usr/include/c++/13/vector:72, + from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.h:27, + from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:10: +/usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const BamTools::Internal::BtiBlock&}; _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator]': +/usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 + 445 | vector<_Tp, _Alloc>:: + | ^~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/13/vector:66: +In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator]', + inlined from 'void BamTools::Internal::BamToolsIndex::ReadBlocks(const BamTools::Internal::BtiReferenceSummary&, BamTools::Internal::BtiBlockVector&)' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:589:25: +/usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 + 1292 | _M_realloc_insert(end(), __x); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ +/usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {BamTools::Internal::BtiReferenceSummary}; _Tp = BamTools::Internal::BtiReferenceSummary; _Alloc = std::allocator]': +/usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 + 445 | vector<_Tp, _Alloc>:: + | ^~~~~~~~~~~~~~~~~~~ +In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {BamTools::Internal::BtiReferenceSummary}; _Tp = BamTools::Internal::BtiReferenceSummary; _Alloc = std::allocator]', + inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = BamTools::Internal::BtiReferenceSummary; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:1299:21, + inlined from 'void BamTools::Internal::BamToolsIndex::InitializeFileSummary(const int&)' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:384:37: +/usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 + 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator]', + inlined from 'virtual bool BamTools::Internal::BamToolsIndex::Create()' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:206:46: +/usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 + 1292 | _M_realloc_insert(end(), __x); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ +In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator]', + inlined from 'virtual bool BamTools::Internal::BamToolsIndex::Create()' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:248:42: +/usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 + 1292 | _M_realloc_insert(end(), __x); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ +In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator]', + inlined from 'virtual bool BamTools::Internal::BamToolsIndex::Create()' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:266:38: +/usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 + 1292 | _M_realloc_insert(end(), __x); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/include/c++/13/bits/stl_algo.h:4861:18, inlined from 'void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:880:9: @@ -1270,7 +1356,6 @@ /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_symlink_library libbamtools.so.2.5.2 libbamtools.so.2.5.2 libbamtools.so In file included from /usr/include/c++/13/vector:66: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator]', inlined from 'void BamTools::Internal::BamStandardIndex::MergeAlignmentChunks(BamTools::Internal::BaiAlignmentChunkVector&)' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:634:27: @@ -1282,29 +1367,8 @@ /usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1292 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -make[3]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf' -[ 59%] Built target BamTools -make -f src/CMakeFiles/BamTools-utils.dir/build.make src/CMakeFiles/BamTools-utils.dir/depend -make[3]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf' -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bamtools-2.5.2+dfsg /build/reproducible-path/bamtools-2.5.2+dfsg/src /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src/CMakeFiles/BamTools-utils.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf' -make -f src/CMakeFiles/BamTools-utils.dir/build.make src/CMakeFiles/BamTools-utils.dir/build -make[3]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf' -In file included from /usr/include/c++/13/vector:72, - from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.h:27, - from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:10: -/usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const BamTools::Internal::BtiBlock&}; _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator]': -/usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 - 445 | vector<_Tp, _Alloc>:: - | ^~~~~~~~~~~~~~~~~~~ -[ 60%] Building CXX object src/CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o -MF CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o.d -o CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/utils/bamtools_fasta.cpp -In file included from /usr/include/c++/13/vector:66: -In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator]', - inlined from 'void BamTools::Internal::BamToolsIndex::ReadBlocks(const BamTools::Internal::BtiReferenceSummary&, BamTools::Internal::BtiBlockVector&)' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:589:25: -/usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 - 1292 | _M_realloc_insert(end(), __x); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ +[ 64%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/BamPipe_p.cpp In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator]', inlined from 'void BamTools::Internal::BamStandardIndex::SaveAlignmentChunkToBin(BamTools::Internal::BaiBinMap&, const uint32_t&, const uint64_t&, const uint64_t&)' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:813:28: /usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 @@ -1315,16 +1379,6 @@ /usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1292 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -/usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {BamTools::Internal::BtiReferenceSummary}; _Tp = BamTools::Internal::BtiReferenceSummary; _Alloc = std::allocator]': -/usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 - 445 | vector<_Tp, _Alloc>:: - | ^~~~~~~~~~~~~~~~~~~ -In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {BamTools::Internal::BtiReferenceSummary}; _Tp = BamTools::Internal::BtiReferenceSummary; _Alloc = std::allocator]', - inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = BamTools::Internal::BtiReferenceSummary; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:1299:21, - inlined from 'void BamTools::Internal::BamToolsIndex::InitializeFileSummary(const int&)' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:384:37: -/usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 - 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]': /usr/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 529 | vector<_Tp, _Alloc>:: @@ -1334,31 +1388,12 @@ /usr/include/c++/13/bits/stl_vector.h:1037:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1037 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator]', - inlined from 'virtual bool BamTools::Internal::BamToolsIndex::Create()' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:206:46: -/usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 - 1292 | _M_realloc_insert(end(), __x); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator]', - inlined from 'virtual bool BamTools::Internal::BamToolsIndex::Create()' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:248:42: -/usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 - 1292 | _M_realloc_insert(end(), __x); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator]', - inlined from 'virtual bool BamTools::Internal::BamToolsIndex::Create()' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:266:38: -/usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 - 1292 | _M_realloc_insert(end(), __x); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/bamtools-2.5.2+dfsg/src/utils/bamtools_fasta.cpp: In member function 'bool BamTools::Fasta::FastaPrivate::CreateIndex(const std::string&)': -/build/reproducible-path/bamtools-2.5.2+dfsg/src/utils/bamtools_fasta.cpp:161:15: warning: comparison is always true due to limited range of data type [-Wtype-limits] - 161 | while ((c >= 0) && (c != '\n')) { - | ~~^~~~ +[ 65%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/BgzfStream_p.cpp /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {long long int}; _Tp = long long int; _Alloc = std::allocator]': /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ -[ 61%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/BamDeviceFactory_p.cpp In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {long long int}; _Tp = long long int; _Alloc = std::allocator]', inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = long long int; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:1299:21, inlined from 'void BamTools::Internal::BamStandardIndex::CalculateCandidateOffsets(const BamTools::Internal::BaiReferenceSummary&, const uint64_t&, std::set&, std::vector&)' at /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:179:38: @@ -1385,10 +1420,56 @@ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -[ 62%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/BamFile_p.cpp -[ 63%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/BamFtp_p.cpp +[ 66%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/ByteArray_p.cpp +[ 67%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/HostAddress_p.cpp +[ 68%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/HostInfo_p.cpp +[ 69%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/HttpHeader_p.cpp +[ 70%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/ILocalIODevice_p.cpp +[ 71%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/RollingBuffer_p.cpp +[ 72%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/TcpSocketEngine_p.cpp +[ 73%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/TcpSocket_p.cpp +[ 74%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE 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CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o CMakeFiles/BamTools.dir/api/internal/bam/BamReader_p.cpp.o CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o CMakeFiles/BamTools.dir/api/internal/index/BamIndexFactory_p.cpp.o CMakeFiles/BamTools.dir/api/internal/index/BamStandardIndex_p.cpp.o CMakeFiles/BamTools.dir/api/internal/index/BamToolsIndex_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamDeviceFactory_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamFtp_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamHttp_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -lz +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_symlink_library libbamtools.so.2.5.2 libbamtools.so.2.5.2 libbamtools.so +make[3]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf' +[ 79%] Built target BamTools +make -f src/CMakeFiles/BamTools-utils.dir/build.make src/CMakeFiles/BamTools-utils.dir/depend +make[3]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf' +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bamtools-2.5.2+dfsg /build/reproducible-path/bamtools-2.5.2+dfsg/src /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src/CMakeFiles/BamTools-utils.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf' +make -f src/CMakeFiles/BamTools-utils.dir/build.make src/CMakeFiles/BamTools-utils.dir/build +make[3]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf' +[ 83%] Building CXX object src/CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o +[ 83%] Building CXX object src/CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o +[ 83%] Building CXX object src/CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o +[ 83%] Building CXX object src/CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o -MF CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o.d -o CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/utils/bamtools_fasta.cpp +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o -MF CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o.d -o CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/utils/bamtools_options.cpp +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o -MF CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o.d -o CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/utils/bamtools_pileup_engine.cpp +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o -MF CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o.d -o CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/utils/bamtools_utilities.cpp +/build/reproducible-path/bamtools-2.5.2+dfsg/src/utils/bamtools_fasta.cpp: In member function 'bool BamTools::Fasta::FastaPrivate::CreateIndex(const std::string&)': +/build/reproducible-path/bamtools-2.5.2+dfsg/src/utils/bamtools_fasta.cpp:161:15: warning: comparison is always true due to limited range of data type [-Wtype-limits] + 161 | while ((c >= 0) && (c != '\n')) { + | ~~^~~~ In file included from /usr/include/c++/13/vector:72, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/utils/bamtools_fasta.cpp:21: /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const BamTools::Fasta::FastaPrivate::FastaIndexData&}; _Tp = BamTools::Fasta::FastaPrivate::FastaIndexData; _Alloc = std::allocator]': @@ -1406,63 +1487,27 @@ /usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1292 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -[ 64%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamHttp_p.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time 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-I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/utils/BamException_p.cpp -[ 85%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/internal/io/TcpSocketEngine_unix_p.cpp -[ 86%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_count.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_count.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_count.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_count.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_count.cpp +cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_coverage.cpp In file included from /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/BamAlgorithms.h:15, from /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_count.cpp:12: /build/reproducible-path/bamtools-2.5.2+dfsg/src/api/algorithms/Sort.h:64:18: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] @@ -1475,15 +1520,6 @@ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 87%] Linking CXX static library libbamtools.a -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -P CMakeFiles/BamTools_static.dir/cmake_clean_target.cmake -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools_static.dir/link.txt --verbose=1 -/usr/bin/ar qc libbamtools.a CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o CMakeFiles/BamTools_static.dir/api/BamWriter.cpp.o CMakeFiles/BamTools_static.dir/api/SamHeader.cpp.o CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o CMakeFiles/BamTools_static.dir/api/SamReadGroup.cpp.o CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o CMakeFiles/BamTools_static.dir/api/SamSequence.cpp.o CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/bam/BamWriter_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BamHttp_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/ByteArray_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/HostAddress_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/HostInfo_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/ILocalIODevice_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocket_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatParser_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatPrinter_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/sam/SamHeaderValidator_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -/usr/bin/ranlib libbamtools.a -make[3]: Leaving directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf' -[ 87%] Built target BamTools_static -[ 88%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o -cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_coverage.cpp [ 89%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o cd /build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/build/reproducible-path/bamtools-2.5.2+dfsg/src -I/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/build/reproducible-path/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o -c /build/reproducible-path/bamtools-2.5.2+dfsg/src/toolkit/bamtools_filter.cpp [ 90%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_header.cpp.o @@ -1527,10 +1563,10 @@ make[1]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg' cd obj-* && ln -s src/toolkit/ bin dh_auto_test --arch - cd obj-arm-linux-gnueabihf && make -j3 test ARGS\+=--verbose ARGS\+=-j3 + cd obj-arm-linux-gnueabihf && make -j4 test ARGS\+=--verbose ARGS\+=-j4 make[2]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf' Running tests... -/usr/bin/ctest --force-new-ctest-process --verbose -j3 +/usr/bin/ctest --force-new-ctest-process --verbose -j4 UpdateCTestConfiguration from :/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/DartConfiguration.tcl Parse Config file:/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/DartConfiguration.tcl @@ -1603,7 +1639,7 @@ create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install -Nlibbamtools-doc - cd obj-arm-linux-gnueabihf && make -j3 install DESTDIR=/build/reproducible-path/bamtools-2.5.2\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd obj-arm-linux-gnueabihf && make -j4 install DESTDIR=/build/reproducible-path/bamtools-2.5.2\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/reproducible-path/bamtools-2.5.2+dfsg -B/build/reproducible-path/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -1712,12 +1748,14 @@ 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/1317/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1317/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/9772 and its subdirectories -I: Current time: Mon Jul 15 23:48:32 -12 2024 -I: pbuilder-time-stamp: 1721130512 +I: removing directory /srv/workspace/pbuilder/1317 and its subdirectories +I: Current time: Wed Jul 17 01:51:58 +14 2024 +I: pbuilder-time-stamp: 1721130718