Diff of the two buildlogs: -- --- b1/build.log 2023-04-11 14:23:01.018457383 +0000 +++ b2/build.log 2023-04-11 14:28:13.472055837 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Apr 11 02:19:38 -12 2023 -I: pbuilder-time-stamp: 1681222778 +I: Current time: Tue May 14 10:46:05 +14 2024 +I: pbuilder-time-stamp: 1715633165 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration @@ -16,7 +16,7 @@ I: copying [./libbpp-seq-omics_2.4.1.orig.tar.gz] I: copying [./libbpp-seq-omics_2.4.1-9.debian.tar.xz] I: Extracting source -gpgv: Signature made Mon Nov 28 05:12:02 2022 -12 +gpgv: Signature made Tue Nov 29 07:12:02 2022 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key @@ -28,11 +28,20 @@ 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/26904/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/23724/tmp/hooks/D01_modify_environment starting +debug: Running on codethink11-arm64. +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 +lrwxrwxrwx 1 root root 4 Jan 6 2023 /bin/sh -> dash +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/23724/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/23724/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME='pbuilder2' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=8' @@ -42,38 +51,38 @@ IFS=' ' LANG='C' - LANGUAGE='en_US:en' + LANGUAGE='nl_BE:nl' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' + 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' - PPID='26904' + PPID='23724' PS1='# ' PS2='> ' 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.42jfSGpY/pbuilderrc_KAG7 --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.42jfSGpY/b1 --logfile b1/build.log libbpp-seq-omics_2.4.1-9.dsc' + 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.42jfSGpY/pbuilderrc_zAaW --distribution bookworm --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.42jfSGpY/b2 --logfile b2/build.log --extrapackages usrmerge libbpp-seq-omics_2.4.1-9.dsc' SUDO_GID='117' SUDO_UID='110' SUDO_USER='jenkins' TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' + TZ='/usr/share/zoneinfo/Etc/GMT-14' USER='root' USERNAME='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.16:3128' I: uname -a - Linux codethink12-arm64 4.15.0-208-generic #220-Ubuntu SMP Mon Mar 20 14:28:12 UTC 2023 aarch64 GNU/Linux + Linux i-capture-the-hostname 4.15.0-208-generic #220-Ubuntu SMP Mon Mar 20 14:28:12 UTC 2023 aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Apr 8 22:26 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/26904/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 May 13 06:50 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/23724/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -168,7 +177,7 @@ Get: 51 http://deb.debian.org/debian bookworm/main arm64 libbpp-core-dev arm64 2.4.1-9 [910 kB] Get: 52 http://deb.debian.org/debian bookworm/main arm64 libbpp-seq12 arm64 2.4.1-9 [430 kB] Get: 53 http://deb.debian.org/debian bookworm/main arm64 libbpp-seq-dev arm64 2.4.1-9 [708 kB] -Fetched 32.5 MB in 1s (22.9 MB/s) +Fetched 32.5 MB in 1s (45.7 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libproc2-0:arm64. (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 ... 19616 files and directories currently installed.) @@ -394,8 +403,17 @@ Writing extended state information... Building tag database... -> Finished parsing the build-deps +Reading package lists... +Building dependency tree... +Reading state information... +usrmerge is already the newest version (35). +0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/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_2.4.1-9_source.changes +I: user script /srv/workspace/pbuilder/23724/tmp/hooks/A99_set_merged_usr starting +Re-configuring usrmerge... +I: user script /srv/workspace/pbuilder/23724/tmp/hooks/A99_set_merged_usr finished +hostname: Temporary failure in name resolution +I: Running cd /build/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_2.4.1-9_source.changes dpkg-buildpackage: info: source package libbpp-seq-omics dpkg-buildpackage: info: source version 2.4.1-9 dpkg-buildpackage: info: source distribution unstable @@ -459,202 +477,202 @@ make[3]: Entering directory '/build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu' cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-seq-omics-2.4.1 /build/libbpp-seq-omics-2.4.1/src /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src/CMakeFiles/bpp-seq-omics-shared.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu' -make[3]: Leaving directory '/build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu' -make -f src/CMakeFiles/bpp-seq-omics-static.dir/build.make src/CMakeFiles/bpp-seq-omics-static.dir/build make -f src/CMakeFiles/bpp-seq-omics-shared.dir/build.make src/CMakeFiles/bpp-seq-omics-shared.dir/build make[3]: Entering directory '/build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu' +make[3]: Leaving directory '/build/libbpp-seq-omics-2.4.1/obj-aarch64-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/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu' -[ 6%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp.o -[ 6%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp.o -[ 6%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp.o -[ 6%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp.o -[ 6%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/SequenceFeature.cpp.o +[ 1%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp.o cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_omics_shared_EXPORTS -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -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/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp -cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp +[ 2%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp.o cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_omics_shared_EXPORTS -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -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/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp -cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/SequenceFeature.cpp +[ 3%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/SequenceFeature.cpp.o +[ 4%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp.o +[ 6%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp.o cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_omics_shared_EXPORTS -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp.o -MF CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp.o.d -o CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp.o -c /build/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp -[ 7%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp.o -cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp +[ 7%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/SequenceFeatureTools.cpp.o [ 8%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp.o -[ 9%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/SequenceFeature.cpp.o +cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/Bed/BedGraphFeatureReader.cpp +[ 9%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp.o cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/Gff/GffFeatureReader.cpp cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_omics_shared_EXPORTS -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/SequenceFeature.cpp.o -MF CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/SequenceFeature.cpp.o.d -o CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/SequenceFeature.cpp.o -c /build/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/SequenceFeature.cpp -[ 10%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/SequenceFeatureTools.cpp.o -cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/SequenceFeatureTools.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/SequenceFeatureTools.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/SequenceFeatureTools.cpp.o -c /build/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Feature/SequenceFeatureTools.cpp -[ 12%] Building CXX object src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Feature/SequenceFeatureTools.cpp.o +cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Feature/Gtf/GtfFeatureReader.cpp.o -MF 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src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Fastq.cpp.o cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_omics_shared_EXPORTS -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Fastq.cpp.o -MF CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Fastq.cpp.o.d -o CMakeFiles/bpp-seq-omics-shared.dir/Bpp/Seq/Io/Fastq.cpp.o -c /build/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Fastq.cpp -[ 14%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Fastq.cpp.o -cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Fastq.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Fastq.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Fastq.cpp.o -c /build/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Fastq.cpp -[ 15%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/AlignmentFilterMafIterator.cpp.o -cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/AlignmentFilterMafIterator.cpp.o -MF CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/AlignmentFilterMafIterator.cpp.o.d -o CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/AlignmentFilterMafIterator.cpp.o -c /build/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/AlignmentFilterMafIterator.cpp -[ 17%] Building CXX 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"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 -[ 95%] Linking CXX shared library libbpp-seq-omics.so +[ 75%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/MsmcOutputMafIterator.cpp.o +cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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 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CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/RemoveEmptySequencesMafIterator.cpp.o -c /build/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/RemoveEmptySequencesMafIterator.cpp +[ 86%] Linking CXX shared library libbpp-seq-omics.so cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-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/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -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/aarch64-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/aarch64-linux-gnu/libbpp-core.so.4.1.0 -make[3]: Leaving directory '/build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu' -[ 95%] Built target bpp-seq-omics-static +[ 87%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceFilterMafIterator.cpp.o +cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/SequenceFilterMafIterator.cpp cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-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/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu' -[ 95%] Built target bpp-seq-omics-shared +[ 87%] 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/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu' cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-seq-omics-2.4.1 /build/libbpp-seq-omics-2.4.1/test /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/test /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/test/CMakeFiles/test_fastq.dir/DependInfo.cmake --color= +make[3]: Leaving directory '/build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu' +make -f test/CMakeFiles/test_fastq.dir/build.make test/CMakeFiles/test_fastq.dir/build make[3]: Entering directory '/build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu' -cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-seq-omics-2.4.1 /build/libbpp-seq-omics-2.4.1/test /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/test /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/test/CMakeFiles/test_gff.dir/DependInfo.cmake --color= +[ 89%] Building CXX object test/CMakeFiles/test_fastq.dir/test_fastq.cpp.o +cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/test && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -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/libbpp-seq-omics-2.4.1/test/test_fastq.cpp +[ 90%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceLDhotOutputMafIterator.cpp.o +cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/SequenceLDhotOutputMafIterator.cpp +[ 91%] Building CXX object src/CMakeFiles/bpp-seq-omics-static.dir/Bpp/Seq/Io/Maf/SequenceStatisticsMafIterator.cpp.o +cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/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/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/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/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/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/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/libbpp-seq-omics-2.4.1/src/Bpp/Seq/Io/Maf/WindowSplitMafIterator.cpp +[ 96%] Linking CXX executable test_fastq +cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-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/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -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/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src ../src/libbpp-seq-omics.so.3.0.0 /usr/lib/aarch64-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/aarch64-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu' +make -f test/CMakeFiles/test_gff.dir/build.make test/CMakeFiles/test_gff.dir/depend +make[3]: Entering directory '/build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu' +cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-seq-omics-2.4.1 /build/libbpp-seq-omics-2.4.1/test /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/test /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/test/CMakeFiles/test_gff.dir/DependInfo.cmake --color= +[ 96%] Built target test_fastq make[3]: Leaving directory '/build/libbpp-seq-omics-2.4.1/obj-aarch64-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/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu' make[3]: Entering directory '/build/libbpp-seq-omics-2.4.1/obj-aarch64-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/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/test && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -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/libbpp-seq-omics-2.4.1/test/test_gff.cpp -cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/test && /usr/bin/c++ -I/build/libbpp-seq-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -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/libbpp-seq-omics-2.4.1/test/test_fastq.cpp [ 98%] Linking CXX executable test_gff cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-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/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -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/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src ../src/libbpp-seq-omics.so.3.0.0 /usr/lib/aarch64-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/aarch64-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu' [ 98%] Built target test_gff -[100%] Linking CXX executable test_fastq -cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-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/libbpp-seq-omics-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -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/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src ../src/libbpp-seq-omics.so.3.0.0 /usr/lib/aarch64-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/aarch64-linux-gnu/libbpp-core.so.4.1.0 +[100%] Linking CXX static library libbpp-seq-omics.a +cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/bpp-seq-omics-static.dir/cmake_clean_target.cmake +cd /build/libbpp-seq-omics-2.4.1/obj-aarch64-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/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu' -[100%] Built target test_fastq +[100%] Built target bpp-seq-omics-static make[2]: Leaving directory '/build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu' @@ -686,10 +704,6 @@ 2: Test command: /build/libbpp-seq-omics-2.4.1/obj-aarch64-linux-gnu/test/test_gff 2: Working Directory: /build/libbpp-seq-omics-2.4.1/test 2: Test timeout computed to be: 60000 -2: Found feature gene00001 of type gene, starting at 999 and ending at 9000 -2: Found feature tfbs00001 of type TF_binding_site, starting at 999 and ending at 1012 -2: Found feature mRNA00001 of type mRNA, starting at 1049 and ending at 9000 -2: Found feature mRNA00002 of type mRNA, starting at 1049 and ending at 9000 1: EAS54_6_R1_2_1_413_324 25 18 26 1: @EAS54_6_R1_2_1_413_324 1: CCCTTCTTGTCTTCAGCGTTTCTCC @@ -705,6 +719,10 @@ 1: GTTGCTTCTGGCGTGGGTGGGGGGG 1: +EAS54_6_R1_2_1_443_348 1: ;;;;;;;;;;;9;7;;.7;393333 +2: Found feature gene00001 of type gene, starting at 999 and ending at 9000 +2: Found feature tfbs00001 of type TF_binding_site, starting at 999 and ending at 1012 +2: Found feature mRNA00001 of type mRNA, starting at 1049 and ending at 9000 +2: Found feature mRNA00002 of type mRNA, starting at 1049 and ending at 9000 2: Found feature mRNA00003 of type mRNA, starting at 1299 and ending at 9000 2: Found feature exon00001 of type exon, starting at 1299 and ending at 1500 2: Found feature exon00002 of type exon, starting at 1049 and ending at 1500 @@ -847,9 +865,9 @@ dpkg-gencontrol: warning: package libbpp-seq-omics-dev: substitution variable ${devlibs:Depends} unused, but is defined dh_md5sums dh_builddeb -dpkg-deb: building package 'libbpp-seq-omics-dev' in '../libbpp-seq-omics-dev_2.4.1-9_arm64.deb'. -dpkg-deb: building package 'libbpp-seq-omics3' in '../libbpp-seq-omics3_2.4.1-9_arm64.deb'. dpkg-deb: building package 'libbpp-seq-omics3-dbgsym' in '../libbpp-seq-omics3-dbgsym_2.4.1-9_arm64.deb'. +dpkg-deb: building package 'libbpp-seq-omics3' in '../libbpp-seq-omics3_2.4.1-9_arm64.deb'. +dpkg-deb: building package 'libbpp-seq-omics-dev' in '../libbpp-seq-omics-dev_2.4.1-9_arm64.deb'. dpkg-genbuildinfo --build=binary -O../libbpp-seq-omics_2.4.1-9_arm64.buildinfo dpkg-genchanges --build=binary -O../libbpp-seq-omics_2.4.1-9_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -857,12 +875,14 @@ 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/23724/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/23724/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/26904 and its subdirectories -I: Current time: Tue Apr 11 02:23:00 -12 2023 -I: pbuilder-time-stamp: 1681222980 +I: removing directory /srv/workspace/pbuilder/23724 and its subdirectories +I: Current time: Tue May 14 10:51:12 +14 2024 +I: pbuilder-time-stamp: 1715633472