Diff of the two buildlogs: -- --- b1/build.log 2024-10-24 12:28:01.702705329 +0000 +++ b2/build.log 2024-10-24 12:30:29.069466312 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Wed Nov 26 06:47:45 -12 2025 -I: pbuilder-time-stamp: 1764182865 +I: Current time: Fri Oct 25 02:28:04 +14 2024 +I: pbuilder-time-stamp: 1729772884 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -29,52 +29,84 @@ dpkg-source: info: applying unforce-cxxflags.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/807065/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/59352/tmp/hooks/D01_modify_environment starting +debug: Running on ionos11-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Oct 24 12:28 /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/59352/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/59352/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="32" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.32(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=20 ' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='7921d808a6ea402580447c9cae3c99a3' - 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='807065' - PS1='# ' - PS2='> ' + INVOCATION_ID=aabc2fa7f0734f7498896a0dd32190e6 + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=59352 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.CfD34gqd/pbuilderrc_UCXA --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.CfD34gqd/b1 --logfile b1/build.log libbpp-seq-omics_2.4.1-12.dsc' - SUDO_GID='111' - SUDO_UID='106' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.CfD34gqd/pbuilderrc_aJCG --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.CfD34gqd/b2 --logfile b2/build.log libbpp-seq-omics_2.4.1-12.dsc' + SUDO_GID=111 + SUDO_UID=106 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos15-amd64 6.10.11+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.10.11-1~bpo12+1 (2024-10-03) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-26-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.112-1 (2024-09-30) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/807065/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/59352/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -87,7 +119,7 @@ Depends: dpkg-dev (>= 1.22.5), debhelper-compat (= 13), cmake, d-shlibs (>= 0.106~), libbpp-seq-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. -(Reading database ... 19945 files and directories currently installed.) +(Reading database ... 21880 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: @@ -174,10 +206,10 @@ Get: 56 http://deb.debian.org/debian trixie/main amd64 libbpp-core-dev amd64 2.4.1-13 [957 kB] Get: 57 http://deb.debian.org/debian trixie/main amd64 libbpp-seq12t64 amd64 2.4.1-13 [510 kB] Get: 58 http://deb.debian.org/debian trixie/main amd64 libbpp-seq-dev amd64 2.4.1-13 [745 kB] -Fetched 40.0 MB in 14s (2951 kB/s) +Fetched 40.0 MB in 1s (59.8 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libproc2-0:amd64. -(Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19945 files and directories currently installed.) +(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 ... 21880 files and directories currently installed.) Preparing to unpack .../00-libproc2-0_2%3a4.0.4-6_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-6) ... Selecting previously unselected package procps. @@ -421,7 +453,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/libbpp-seq-omics-2.4.1/ && 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 > ../libbpp-seq-omics_2.4.1-12_source.changes +I: user script /srv/workspace/pbuilder/59352/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/59352/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/libbpp-seq-omics-2.4.1/ && 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 > ../libbpp-seq-omics_2.4.1-12_source.changes dpkg-buildpackage: info: source package libbpp-seq-omics dpkg-buildpackage: info: source version 2.4.1-12 dpkg-buildpackage: info: source distribution unstable @@ -460,8 +496,8 @@ -- shared lib: /usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 -- includes: /usr/include -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) --- Configuring done (1.3s) --- Generating done (0.0s) +-- Configuring done (0.6s) +-- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: @@ -472,7 +508,7 @@ -- Build files have been written to: /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu dh_auto_build - cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j20 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libbpp-seq-omics-2.4.1 -B/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu//CMakeFiles/progress.marks @@ -485,210 +521,210 @@ make[3]: Entering directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libbpp-seq-omics-2.4.1 /build/reproducible-path/libbpp-seq-omics-2.4.1/src /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src/CMakeFiles/bpp-seq-omics-shared.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' make -f src/CMakeFiles/bpp-seq-omics-shared.dir/build.make src/CMakeFiles/bpp-seq-omics-shared.dir/build -make -f src/CMakeFiles/bpp-seq-omics-static.dir/build.make src/CMakeFiles/bpp-seq-omics-static.dir/build make[3]: Entering directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' +make -f src/CMakeFiles/bpp-seq-omics-static.dir/build.make src/CMakeFiles/bpp-seq-omics-static.dir/build make[3]: Entering directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' -[ 4%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp.o -[ 4%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp.o -[ 4%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp.o -[ 8%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/BlockMergerMafIterator.cpp.o -[ 4%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp.o -[ 8%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/SequenceFeature.cpp.o -cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp -cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp -[ 12%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/ChromosomeMafIterator.cpp.o -[ 12%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/BlockMergerMafIterator.cpp.o -cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp +[ 2%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Fastq.cpp.o +[ 2%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp.o +[ 4%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/SequenceFeature.cpp.o +[ 6%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp.o +[ 7%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/BlockMergerMafIterator.cpp.o +[ 7%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp.o +[ 8%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/ChromosomeMafIterator.cpp.o +[ 10%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/DuplicateFilterMafIterator.cpp.o +[ 9%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/AlignmentFilterMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_omics_shared_EXPORTS -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp.o -MF CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp.o.d -o CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp +[ 12%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/CoordinateTranslatorMafIterator.cpp.o [ 13%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/SequenceFeatureTools.cpp.o -[ 14%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Fastq.cpp.o -[ 15%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/ConcatenateMafIterator.cpp.o -cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/SequenceFeature.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/SequenceFeature.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/SequenceFeature.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/SequenceFeature.cpp -[ 17%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/SequenceFeatureTools.cpp.o -[ 18%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/DuplicateFilterMafIterator.cpp.o -[ 21%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/CoordinatesOutputMafIterator.cpp.o -[ 21%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Fastq.cpp.o -[ 23%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/EntropyFilterMafIterator.cpp.o +[ 14%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/CoordinatesOutputMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_omics_shared_EXPORTS -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp.o -MF CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp.o.d -o CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp +[ 15%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/FeatureExtractorMafIterator.cpp.o cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_omics_shared_EXPORTS -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 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CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/SequenceFeature.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/SequenceFeature.cpp cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_omics_shared_EXPORTS -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/SequenceFeatureTools.cpp.o -MF CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/SequenceFeatureTools.cpp.o.d -o CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/SequenceFeatureTools.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/SequenceFeatureTools.cpp -[ 25%] Building CXX object 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src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.cpp.o -cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.cpp -[ 84%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStreamToMafIterator.cpp.o -cd 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src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/SequenceLDhotOutputMafIterator.cpp.o cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_omics_shared_EXPORTS -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/SequenceLDhotOutputMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/SequenceLDhotOutputMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/SequenceLDhotOutputMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/SequenceLDhotOutputMafIterator.cpp -cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/VcfOutputMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/VcfOutputMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/VcfOutputMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/VcfOutputMafIterator.cpp -[ 87%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.cpp.o +[ 52%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.cpp.o cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ 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&& /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/WindowSplitMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/WindowSplitMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/WindowSplitMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/WindowSplitMafIterator.cpp -[ 91%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/VcfOutputMafIterator.cpp.o +[ 54%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/VcfOutputMafIterator.cpp.o cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ 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/usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/ChromosomeMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/ChromosomeMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/ChromosomeMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/ChromosomeMafIterator.cpp +[ 57%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/WindowSplitMafIterator.cpp.o cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_omics_shared_EXPORTS -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 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-/usr/bin/ar qc libbpp-seq-omics.a "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/SequenceFeature.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/SequenceFeatureTools.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Fastq.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/AlignmentFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/BlockMergerMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/ChromosomeMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/ConcatenateMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/CoordinateTranslatorMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/CoordinatesOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/DuplicateFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/EntropyFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/FeatureExtractorMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/FeatureFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/FullGapFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/IterationListener.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafParser.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafSequence.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafStatistics.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MaskFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MsmcOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/TableOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OrderFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OrphanSequenceFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OutputAlignmentMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/PlinkOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/QualityFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/RemoveEmptySequencesMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceLDhotOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStreamToMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/VcfOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/WindowSplitMafIterator.cpp.o" -[ 95%] Linking CXX shared library libbpp-seq-omics.so +[ 58%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/ConcatenateMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/ConcatenateMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/ConcatenateMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/ConcatenateMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/ConcatenateMafIterator.cpp +[ 59%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/CoordinateTranslatorMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/CoordinateTranslatorMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/CoordinateTranslatorMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/CoordinateTranslatorMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/CoordinateTranslatorMafIterator.cpp +[ 60%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/CoordinatesOutputMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/CoordinatesOutputMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/CoordinatesOutputMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/CoordinatesOutputMafIterator.cpp.o -c 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Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/EntropyFilterMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/EntropyFilterMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/EntropyFilterMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/EntropyFilterMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/EntropyFilterMafIterator.cpp +[ 64%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/FeatureExtractorMafIterator.cpp.o +cd 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src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/FullGapFilterMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/FeatureFilterMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/FeatureFilterMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/FeatureFilterMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/FeatureFilterMafIterator.cpp +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/FullGapFilterMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/FullGapFilterMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/FullGapFilterMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/FullGapFilterMafIterator.cpp +[ 68%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection 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src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/IterationListener.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/IterationListener.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/IterationListener.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/IterationListener.cpp +[ 70%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafParser.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafParser.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafParser.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafParser.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/MafParser.cpp +[ 71%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafSequence.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafSequence.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafSequence.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafSequence.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/MafSequence.cpp +[ 73%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafStatistics.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafStatistics.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafStatistics.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafStatistics.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/MafStatistics.cpp +[ 74%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MaskFilterMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MaskFilterMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MaskFilterMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MaskFilterMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/MaskFilterMafIterator.cpp +[ 75%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MsmcOutputMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MsmcOutputMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MsmcOutputMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MsmcOutputMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/MsmcOutputMafIterator.cpp +[ 76%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/TableOutputMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/TableOutputMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/TableOutputMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/TableOutputMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/TableOutputMafIterator.cpp +[ 78%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OrderFilterMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OrderFilterMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OrderFilterMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OrderFilterMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/OrderFilterMafIterator.cpp +[ 79%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OrphanSequenceFilterMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OrphanSequenceFilterMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OrphanSequenceFilterMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OrphanSequenceFilterMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/OrphanSequenceFilterMafIterator.cpp +[ 80%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OutputAlignmentMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OutputAlignmentMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OutputAlignmentMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OutputAlignmentMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/OutputAlignmentMafIterator.cpp +[ 81%] Linking CXX shared library libbpp-seq-omics.so cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpp-seq-omics-shared.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libbpp-seq-omics.so.3 -o libbpp-seq-omics.so.3.0.0 "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/SequenceFeature.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/SequenceFeatureTools.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Fastq.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/AlignmentFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/BlockMergerMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/ChromosomeMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/ConcatenateMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/CoordinateTranslatorMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/CoordinatesOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/DuplicateFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/EntropyFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/FeatureExtractorMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/FeatureFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/FullGapFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/IterationListener.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/MafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/MafParser.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/MafSequence.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/MafStatistics.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/MaskFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/MsmcOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/TableOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/OrderFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/OrphanSequenceFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/OutputAlignmentMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/OutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/PlinkOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/QualityFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/RemoveEmptySequencesMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/SequenceFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/SequenceLDhotOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/SequenceStreamToMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/VcfOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Maf/WindowSplitMafIterator.cpp.o" /usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 +[ 82%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/PlinkOutputMafIterator.cpp.o +[ 84%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/QualityFilterMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/PlinkOutputMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/PlinkOutputMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/PlinkOutputMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/PlinkOutputMafIterator.cpp +[ 85%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OutputMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/QualityFilterMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/QualityFilterMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/QualityFilterMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/QualityFilterMafIterator.cpp +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OutputMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OutputMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OutputMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/OutputMafIterator.cpp +[ 86%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/RemoveEmptySequencesMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/RemoveEmptySequencesMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/RemoveEmptySequencesMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/RemoveEmptySequencesMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/RemoveEmptySequencesMafIterator.cpp +[ 87%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceFilterMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceFilterMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceFilterMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceFilterMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/SequenceFilterMafIterator.cpp cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_symlink_library libbpp-seq-omics.so.3.0.0 libbpp-seq-omics.so.3 libbpp-seq-omics.so make[3]: Leaving directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' -/usr/bin/ranlib libbpp-seq-omics.a -[ 95%] Built target bpp-seq-omics-shared +[ 89%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceLDhotOutputMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceLDhotOutputMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceLDhotOutputMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceLDhotOutputMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/SequenceLDhotOutputMafIterator.cpp +[ 89%] Built target bpp-seq-omics-shared make -f test/CMakeFiles/test_fastq.dir/build.make test/CMakeFiles/test_fastq.dir/depend -make -f test/CMakeFiles/test_gff.dir/build.make test/CMakeFiles/test_gff.dir/depend make[3]: Entering directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libbpp-seq-omics-2.4.1 /build/reproducible-path/libbpp-seq-omics-2.4.1/test /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/test /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/test/CMakeFiles/test_fastq.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' +make -f test/CMakeFiles/test_fastq.dir/build.make test/CMakeFiles/test_fastq.dir/build +make[3]: Entering directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' +[ 90%] Building CXX object test/CMakeFiles/test_fastq.dir/test_fastq.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/test && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT test/CMakeFiles/test_fastq.dir/test_fastq.cpp.o -MF CMakeFiles/test_fastq.dir/test_fastq.cpp.o.d -o CMakeFiles/test_fastq.dir/test_fastq.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/test/test_fastq.cpp +[ 91%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.cpp +[ 92%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStreamToMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStreamToMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStreamToMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStreamToMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/SequenceStreamToMafIterator.cpp +[ 93%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/VcfOutputMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/VcfOutputMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/VcfOutputMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/VcfOutputMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/VcfOutputMafIterator.cpp +[ 95%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/WindowSplitMafIterator.cpp.o +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/WindowSplitMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/WindowSplitMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/WindowSplitMafIterator.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/WindowSplitMafIterator.cpp +make -f test/CMakeFiles/test_gff.dir/build.make test/CMakeFiles/test_gff.dir/depend make[3]: Entering directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libbpp-seq-omics-2.4.1 /build/reproducible-path/libbpp-seq-omics-2.4.1/test /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/test /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/test/CMakeFiles/test_gff.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' make -f test/CMakeFiles/test_gff.dir/build.make test/CMakeFiles/test_gff.dir/build -make -f test/CMakeFiles/test_fastq.dir/build.make test/CMakeFiles/test_fastq.dir/build -make[3]: Entering directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' -[ 97%] Building CXX object test/CMakeFiles/test_gff.dir/test_gff.cpp.o -[ 97%] Building CXX object test/CMakeFiles/test_fastq.dir/test_fastq.cpp.o -cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/test && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT test/CMakeFiles/test_fastq.dir/test_fastq.cpp.o -MF CMakeFiles/test_fastq.dir/test_fastq.cpp.o.d -o CMakeFiles/test_fastq.dir/test_fastq.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/test/test_fastq.cpp +[ 96%] Building CXX object test/CMakeFiles/test_gff.dir/test_gff.cpp.o cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/test && /usr/bin/c++ -I/build/reproducible-path/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT test/CMakeFiles/test_gff.dir/test_gff.cpp.o -MF CMakeFiles/test_gff.dir/test_gff.cpp.o.d -o CMakeFiles/test_gff.dir/test_gff.cpp.o -c /build/reproducible-path/libbpp-seq-omics-2.4.1/test/test_gff.cpp -[ 98%] Linking CXX executable test_gff +[ 97%] Linking CXX executable test_gff cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_gff.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_gff.dir/test_gff.cpp.o -o test_gff -Wl,-rpath,/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src ../src/libbpp-seq-omics.so.3.0.0 /usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' -[ 98%] Built target test_gff -make[3]: Leaving directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' -[ 98%] Built target bpp-seq-omics-static -[100%] Linking CXX executable test_fastq +[ 97%] Built target test_gff +[ 98%] Linking CXX executable test_fastq cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_fastq.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_fastq.dir/test_fastq.cpp.o -o test_fastq -Wl,-rpath,/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src ../src/libbpp-seq-omics.so.3.0.0 /usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' -[100%] Built target test_fastq +[ 98%] Built target test_fastq +[100%] Linking CXX static library libbpp-seq-omics.a +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/bpp-seq-omics-static.dir/cmake_clean_target.cmake +cd /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpp-seq-omics-static.dir/link.txt --verbose=1 +/usr/bin/ar qc libbpp-seq-omics.a "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/SequenceFeature.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/SequenceFeatureTools.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Fastq.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/AlignmentFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/BlockMergerMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/ChromosomeMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/ConcatenateMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/CoordinateTranslatorMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/CoordinatesOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/DuplicateFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/EntropyFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/FeatureExtractorMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/FeatureFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/FullGapFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/IterationListener.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafParser.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafSequence.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MafStatistics.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MaskFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MsmcOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/TableOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OrderFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OrphanSequenceFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OutputAlignmentMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/OutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/PlinkOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/QualityFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/RemoveEmptySequencesMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceFilterMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceLDhotOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStreamToMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/VcfOutputMafIterator.cpp.o" "CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/WindowSplitMafIterator.cpp.o" +/usr/bin/ranlib libbpp-seq-omics.a +make[3]: Leaving directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' +[100%] Built target bpp-seq-omics-static make[2]: Leaving directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' dh_auto_test - cd obj-x86_64-linux-gnu && make -j42 test ARGS\+=--verbose ARGS\+=-j42 + cd obj-x86_64-linux-gnu && make -j20 test ARGS\+=--verbose ARGS\+=-j20 make[1]: Entering directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' Running tests... -/usr/bin/ctest --force-new-ctest-process --verbose -j42 +/usr/bin/ctest --force-new-ctest-process --verbose -j20 UpdateCTestConfiguration from :/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu/DartConfiguration.tcl @@ -760,7 +796,7 @@ create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install - cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j20 install DESTDIR=/build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libbpp-seq-omics-2.4.1 -B/build/reproducible-path/libbpp-seq-omics-2.4.1/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -780,51 +816,51 @@ -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Feature -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Feature/SequenceFeature.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Feature/SequenceFeatureTools.h -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Feature/Bed -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Feature/Gff --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Feature/Gff/GffFeatureReader.h -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Feature/FeatureReader.h -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Feature/Gtf -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Feature/Gtf/GtfFeatureReader.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Feature/SequenceFeatureTools.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Feature/Gff +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Feature/Gff/GffFeatureReader.h -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/MafBlock.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/AlignmentFilterMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/BlockLengthMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/MafStatistics.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/OrphanSequenceFilterMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/BlockMergerMafIterator.h -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/SequenceStreamToMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/MaskFilterMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/MafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/ConcatenateMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/FeatureFilterMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/RemoveEmptySequencesMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/OutputAlignmentMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/EntropyFilterMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/OutputMafIterator.h -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/FullGapFilterMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/MafSequence.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/QualityFilterMafIterator.h -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/DuplicateFilterMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/FeatureExtractorMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/QualityFilterMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/SequenceLDhotOutputMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/OutputAlignmentMafIterator.h -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/MsmcOutputMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/CoordinateTranslatorMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/PlinkOutputMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/IterationListener.h -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/TableOutputMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/MafParser.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/CoordinatesOutputMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/ChromosomeMafIterator.h -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/SequenceFilterMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/VcfOutputMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/OrderFilterMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/SequenceLDhotOutputMafIterator.h -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/BlockSizeMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/OutputMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/MafStatistics.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/MaskFilterMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/OrphanSequenceFilterMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/BlockLengthMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/IterationListener.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/OrderFilterMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/CoordinatesOutputMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/CoordinateTranslatorMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/PlinkOutputMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/VcfOutputMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/AlignmentFilterMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/MafParser.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/FeatureExtractorMafIterator.h -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/WindowSplitMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/ChromosomeMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/EntropyFilterMafIterator.h --- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/BlockMergerMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/RemoveEmptySequencesMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/MafBlock.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/ConcatenateMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/FeatureFilterMafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/MafIterator.h +-- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/MafSequence.h -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Fastq.h -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/bpp-seq-omics/bpp-seq-omics-targets.cmake -- Installing: /build/reproducible-path/libbpp-seq-omics-2.4.1/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/bpp-seq-omics/bpp-seq-omics-targets-none.cmake @@ -874,8 +910,8 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'libbpp-seq-omics-dev' in '../libbpp-seq-omics-dev_2.4.1-12_amd64.deb'. dpkg-deb: building package 'libbpp-seq-omics3t64-dbgsym' in '../libbpp-seq-omics3t64-dbgsym_2.4.1-12_amd64.deb'. +dpkg-deb: building package 'libbpp-seq-omics-dev' in '../libbpp-seq-omics-dev_2.4.1-12_amd64.deb'. dpkg-deb: building package 'libbpp-seq-omics3t64' in '../libbpp-seq-omics3t64_2.4.1-12_amd64.deb'. dpkg-genbuildinfo --build=binary -O../libbpp-seq-omics_2.4.1-12_amd64.buildinfo dpkg-genchanges --build=binary -O../libbpp-seq-omics_2.4.1-12_amd64.changes @@ -884,12 +920,14 @@ 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/59352/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/59352/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/807065 and its subdirectories -I: Current time: Wed Nov 26 06:51:01 -12 2025 -I: pbuilder-time-stamp: 1764183061 +I: removing directory /srv/workspace/pbuilder/59352 and its subdirectories +I: Current time: Fri Oct 25 02:30:28 +14 2024 +I: pbuilder-time-stamp: 1729773028