Diff of the two buildlogs: -- --- b1/build.log 2023-06-09 07:28:48.362994004 +0000 +++ b2/build.log 2023-06-09 07:31:19.660374383 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Jun 8 19:25:04 -12 2023 -I: pbuilder-time-stamp: 1686295504 +I: Current time: Fri Jul 12 03:51:50 +14 2024 +I: pbuilder-time-stamp: 1720705910 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 [./abpoa_1.4.1.orig.tar.gz] I: copying [./abpoa_1.4.1-3.debian.tar.xz] I: Extracting source -gpgv: Signature made Tue Aug 2 23:33:01 2022 -12 +gpgv: Signature made Thu Aug 4 01:33:01 2022 +14 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key @@ -31,52 +31,84 @@ dpkg-source: info: applying baseline.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/29525/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/17690/tmp/hooks/D01_modify_environment starting +debug: Running on codethink9-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 +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Jul 12 03:52 /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/17690/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/17690/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' - BUILD_ARCH='arm64' - DEBIAN_FRONTEND='noninteractive' + 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]="15" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.15(1)-release' + BUILDDIR=/build + 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 ' - DISTRIBUTION='bookworm' - HOME='/var/lib/jenkins' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=bookworm + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/var/lib/jenkins + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - 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='29525' - PS1='# ' - PS2='> ' + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-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=17690 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.8zTdSxtc/pbuilderrc_RH6T --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.8zTdSxtc/b1 --logfile b1/build.log abpoa_1.4.1-3.dsc' - SUDO_GID='117' - SUDO_UID='110' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - USERNAME='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.16:3128' + 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.8zTdSxtc/pbuilderrc_Vpm6 --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.8zTdSxtc/b2 --logfile b2/build.log --extrapackages usrmerge abpoa_1.4.1-3.dsc' + SUDO_GID=117 + SUDO_UID=110 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + USERNAME=root + _='I: set' + http_proxy=http://192.168.101.16:3128 I: uname -a - Linux codethink14-arm64 4.15.0-212-generic #223-Ubuntu SMP Tue May 23 13:09:17 UTC 2023 aarch64 GNU/Linux + Linux i-capture-the-hostname 4.15.0-212-generic #223-Ubuntu SMP Tue May 23 13:09:17 UTC 2023 aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Jun 6 22:24 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/29525/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Jul 9 06:48 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/17690/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -248,7 +280,7 @@ Get: 122 http://deb.debian.org/debian bookworm/main arm64 python3.11-dev arm64 3.11.2-6 [617 kB] Get: 123 http://deb.debian.org/debian bookworm/main arm64 python3-dev arm64 3.11.2-1+b1 [26.2 kB] Get: 124 http://deb.debian.org/debian bookworm/main arm64 python3-all-dev arm64 3.11.2-1+b1 [1076 B] -Fetched 53.2 MB in 2s (29.9 MB/s) +Fetched 53.2 MB in 1s (53.0 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal: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 ... 19611 files and directories currently installed.) @@ -764,8 +796,17 @@ 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/abpoa-1.4.1/ && 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 > ../abpoa_1.4.1-3_source.changes +I: user script /srv/workspace/pbuilder/17690/tmp/hooks/A99_set_merged_usr starting +Re-configuring usrmerge... +I: user script /srv/workspace/pbuilder/17690/tmp/hooks/A99_set_merged_usr finished +hostname: Temporary failure in name resolution +I: Running cd /build/abpoa-1.4.1/ && 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 > ../abpoa_1.4.1-3_source.changes dpkg-buildpackage: info: source package abpoa dpkg-buildpackage: info: source version 1.4.1-3 dpkg-buildpackage: info: source distribution unstable @@ -1229,26 +1270,26 @@ aarch64-linux-gnu-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/abpoa-1.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.11 -c src/utils.c -o build/temp.linux-arm64-3.11/src/utils.o -O3 -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/abpoa-1.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES build/temp.linux-arm64-3.11/python/pyabpoa.o build/temp.linux-arm64-3.11/src/abpoa_align.o build/temp.linux-arm64-3.11/src/abpoa_graph.o build/temp.linux-arm64-3.11/src/abpoa_output.o build/temp.linux-arm64-3.11/src/abpoa_plot.o build/temp.linux-arm64-3.11/src/abpoa_seed.o build/temp.linux-arm64-3.11/src/abpoa_seq.o build/temp.linux-arm64-3.11/src/kalloc.o build/temp.linux-arm64-3.11/src/kstring.o build/temp.linux-arm64-3.11/src/simd_abpoa_align.o build/temp.linux-arm64-3.11/src/simd_check.o build/temp.linux-arm64-3.11/src/utils.o -lz -lm -lpthread -o /build/abpoa-1.4.1/.pybuild/cpython3_3.11_pyabpoa/build/pyabpoa.cpython-311-aarch64-linux-gnu.so debian/rules execute_after_dh_auto_build -make[1]: Entering directory '/build/abpoa-1.4.1' +make[1]: Map '/build/abpoa-1.4.1' wordt binnengegaan dh_auto_build --buildsystem=makefile -- all make -j8 "INSTALL=install --strip-program=true" all -make[2]: Entering directory '/build/abpoa-1.4.1' +make[2]: Map '/build/abpoa-1.4.1' wordt binnengegaan cc -c -g -O2 -ffile-prefix-map=/build/abpoa-1.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -Wall -O3 -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -Wall -O3 -frelease -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -I./include src/abpoa.c -o src/abpoa.o cc -c -g -O2 -ffile-prefix-map=/build/abpoa-1.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -Wall -O3 -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -Wall -O3 -frelease -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES src/abpoa_align.c -I./include -o src/abpoa_align.o cc -c -g -O2 -ffile-prefix-map=/build/abpoa-1.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -Wall -O3 -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -Wall -O3 -frelease -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES src/abpoa_graph.c -I./include -o src/abpoa_graph.o -cc1: warning: command-line option ‘-frelease’ is valid for D but not for C cc -c -g -O2 -ffile-prefix-map=/build/abpoa-1.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -Wall -O3 -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -Wall -O3 -frelease -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES src/abpoa_plot.c -I./include -o src/abpoa_plot.o -cc1: warning: command-line option ‘-frelease’ is valid for D but not for C cc -c -g -O2 -ffile-prefix-map=/build/abpoa-1.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -Wall -O3 -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -Wall -O3 -frelease -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES src/abpoa_seed.c -I./include -o src/abpoa_seed.o -cc1: warning: command-line option ‘-frelease’ is valid for D but not for C cc -c -g -O2 -ffile-prefix-map=/build/abpoa-1.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -Wall -O3 -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -Wall -O3 -frelease -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES src/abpoa_seq.c -I./include -o src/abpoa_seq.o cc -c -g -O2 -ffile-prefix-map=/build/abpoa-1.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -Wall -O3 -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -Wall -O3 -frelease -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES src/abpoa_output.c -I./include -o src/abpoa_output.o -cc1: warning: command-line option ‘-frelease’ is valid for D but not for C cc -c -g -O2 -ffile-prefix-map=/build/abpoa-1.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -Wall -O3 -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -Wall -O3 -frelease -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES src/kalloc.c -I./include -o src/kalloc.o cc1: warning: command-line option ‘-frelease’ is valid for D but not for C cc1: warning: command-line option ‘-frelease’ is valid for D but not for C cc1: warning: command-line option ‘-frelease’ is valid for D but not for C cc1: warning: command-line option ‘-frelease’ is valid for D but not for C +cc1: warning: command-line option ‘-frelease’ is valid for D but not for C +cc1: warning: command-line option ‘-frelease’ is valid for D but not for C +cc1: warning: command-line option ‘-frelease’ is valid for D but not for C +cc1: warning: command-line option ‘-frelease’ is valid for D but not for C cc -c -g -O2 -ffile-prefix-map=/build/abpoa-1.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -Wall -O3 -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -Wall -O3 -frelease -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES src/kstring.c -I./include -o src/kstring.o cc1: warning: command-line option ‘-frelease’ is valid for D but not for C cc -c -g -O2 -ffile-prefix-map=/build/abpoa-1.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -Wall -O3 -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -Wall -O3 -frelease -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -I./include src/simd_abpoa_align.c -o src/simd_abpoa_align.o @@ -1413,49 +1454,51 @@ ar -csr lib/libabpoa.a ./src/abpoa_align.o ./src/abpoa_graph.o ./src/abpoa_plot.o ./src/abpoa_seed.o ./src/abpoa_seq.o ./src/abpoa_output.o ./src/kalloc.o ./src/kstring.o ./src/simd_abpoa_align.o ./src/simd_check.o ./src/utils.o if [ ! -d ./bin ]; then mkdir ./bin; fi cc -g -O2 -ffile-prefix-map=/build/abpoa-1.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -Wall -O3 -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -Wall -O3 -frelease -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES src/abpoa.o -I./include -L./lib -labpoa -lm -lz -lpthread -o bin/abpoa -make[2]: Leaving directory '/build/abpoa-1.4.1' +make[2]: Map '/build/abpoa-1.4.1' wordt verlaten mv -v bin/abpoa bin/abpoa.generic -renamed 'bin/abpoa' -> 'bin/abpoa.generic' +hernoemd 'bin/abpoa' -> 'bin/abpoa.generic' cp debian/abpoa-dispatch.sh bin/abpoa -make[1]: Leaving directory '/build/abpoa-1.4.1' +make[1]: Map '/build/abpoa-1.4.1' wordt verlaten debian/rules override_dh_auto_test -make[1]: Entering directory '/build/abpoa-1.4.1' +make[1]: Map '/build/abpoa-1.4.1' wordt binnengegaan # Tests from the README.md document ./bin/abpoa ./test_data/seq.fa > cons.fa [main] CMD: ./bin/abpoa.generic ./test_data/seq.fa -[abpoa_main] Real time: 0.001 sec; CPU: 0.005 sec; Peak RSS: 0.002 GB. +[abpoa_main] Real time: 0.001 sec; CPU: 0.007 sec; Peak RSS: 0.003 GB. ./bin/abpoa ./test_data/heter.fa > 2cons.fa [main] CMD: ./bin/abpoa.generic ./test_data/heter.fa -[abpoa_main] Real time: 0.090 sec; CPU: 0.094 sec; Peak RSS: 0.008 GB. +[abpoa_main] Real time: 0.064 sec; CPU: 0.070 sec; Peak RSS: 0.008 GB. ./bin/abpoa -r1 ./test_data/seq.fa > out.msa [main] CMD: ./bin/abpoa.generic -r1 ./test_data/seq.fa -[abpoa_main] Real time: 0.001 sec; CPU: 0.006 sec; Peak RSS: 0.002 GB. +[abpoa_main] Real time: 0.001 sec; CPU: 0.008 sec; Peak RSS: 0.003 GB. ./bin/abpoa -r2 ./test_data/seq.fa > out_cons.msa [main] CMD: ./bin/abpoa.generic -r2 ./test_data/seq.fa -[abpoa_main] Real time: 0.001 sec; CPU: 0.006 sec; Peak RSS: 0.002 GB. +[abpoa_main] Real time: 0.001 sec; CPU: 0.008 sec; Peak RSS: 0.003 GB. ./bin/abpoa -r3 ./test_data/seq.fa > out.gfa [main] CMD: ./bin/abpoa.generic -r3 ./test_data/seq.fa -[abpoa_main] Real time: 0.002 sec; CPU: 0.006 sec; Peak RSS: 0.002 GB. +[abpoa_main] Real time: 0.001 sec; CPU: 0.008 sec; Peak RSS: 0.003 GB. ./bin/abpoa -r4 ./test_data/seq.fa > out4.gfa [main] CMD: ./bin/abpoa.generic -r4 ./test_data/seq.fa -[abpoa_main] Real time: 0.002 sec; CPU: 0.006 sec; Peak RSS: 0.002 GB. +[abpoa_main] Real time: 0.001 sec; CPU: 0.008 sec; Peak RSS: 0.003 GB. cp out.gfa in.gfa cp out.msa in.msa ./bin/abpoa -i in.gfa ./test_data/seq.fa -r3 > out.gfa [main] CMD: ./bin/abpoa.generic -i in.gfa -r3 ./test_data/seq.fa -[abpoa_main] Real time: 0.002 sec; CPU: 0.006 sec; Peak RSS: 0.002 GB. +[abpoa_main] Real time: 0.002 sec; CPU: 0.008 sec; Peak RSS: 0.003 GB. ./bin/abpoa -i in.msa ./test_data/seq.fa -r1 > out.msa [main] CMD: ./bin/abpoa.generic -i in.msa -r1 ./test_data/seq.fa -[abpoa_main] Real time: 0.002 sec; CPU: 0.006 sec; Peak RSS: 0.002 GB. +[abpoa_main] Real time: 0.001 sec; CPU: 0.008 sec; Peak RSS: 0.003 GB. ./bin/abpoa ./test_data/seq.fa -g poa.png > cons.fa [main] CMD: ./bin/abpoa.generic -g poa.png ./test_data/seq.fa -[abpoa_main] Real time: 1.215 sec; CPU: 0.006 sec; Peak RSS: 0.002 GB. +[abpoa_main] Real time: 1.076 sec; CPU: 0.008 sec; Peak RSS: 0.003 GB. ./bin/abpoa ./test_data/heter.fa -d2 [main] CMD: ./bin/abpoa.generic -d2 ./test_data/heter.fa -[abpoa_main] Real time: 0.091 sec; CPU: 0.096 sec; Peak RSS: 0.009 GB. ->Consensus_sequence +[abpoa_main] Real time: 0.071 sec; CPU: 0.078 sec; Peak RSS: 0.010 GB. +>Consensus_sequence_1 0,2,3,4,8,10,11,12,13,14 +CCATTCCCACCATCCTTACCATCAACATCACCATCCCCACCATCCCCAACACCATTCCCACCATCCCTACCATCACCATCACCATCCCCACCAACATCCCCACCACCATCCTCACTACCATCCCCACCACCATTTCCACCATTCCCACCACAGTCACCATCACCCCCACCATCCCCATCATCATCCGCACCATCCCCACCATCCCCACCACCATCTCCATTACCATCCCCACCACCATCTCCATTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATTTCCACCATTCCCACCATCATCCCCACCACCATCCTCGTTACCATCCCCACCACCTTTTCCACCATTCCCACCATCTCCAACACCTCCCCCACCATCATCCCCACCATCCCCACCACCTTCTCCACCATCATTCTCACCATCCCCACCACCATCTCCACCACCATTCTCACCATCTCCACCAACATCCCCACCATCCCCACCCCCATGCCCACCAACATCCCCACCATCCCCACCCCCATGCCCACCAACATCCCCACCATCCCCACCCCCATGCCCACCATCATCCCCACCATCC +>Consensus_sequence_2 1,5,6,7,9 CCATTCCCACCATCCTTACCATCAACATCACCATCCCCACCATCCCCAACACCATTCCCACCATCCCTACCATCACCATCACCATCCCCACCAACATCCCCACCACCATCCTCACTACCATCCCCACCACCATTTCCACCATTCCCACCACAGTCACCATCACCCCCACCATCCCCATCATCATCCGCACCATCCCCACCATCCCCACCACCATCTCCATTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATTTCCACCATTCCCACCATCATCCCCACCACCATCCTCGTTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATTTCCACCATTCCCACCATCATCCCCACCACCATCCCCATTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATTTCCACCATTCCCACCATCATCCCCACCACCATCCTCGTTACCATCCCCACCACCTTTTCCACCATTCCCACCATCATCCCCACCGCCATCCTCGTTACCATCCCCACCACCTTTTCCACCATTCCCACCATCTCCAACACCTCCCCCACCATCATCCCCACCATCCCCACCACCTTCTCCACCATCATTCTCACCATCCCCACCACCATCTCCACCACCATTCTCACCATCTCCACCAACATCCCCACCATCCCCACCCCCATGCCCACCAACATCCCCACCATCCCCACCCCCATGCCCACCATCATCCCCACCATCC -make[1]: Leaving directory '/build/abpoa-1.4.1' +make[1]: Map '/build/abpoa-1.4.1' wordt verlaten create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild @@ -1499,16 +1542,16 @@ dh_shlibdeps -a -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild debian/rules override_dh_gencontrol -make[1]: Entering directory '/build/abpoa-1.4.1' +make[1]: Map '/build/abpoa-1.4.1' wordt binnengegaan dh_gencontrol -- \ -Vsimde:Built-Using="simde (= 0.7.4~rc2-2), " -make[1]: Leaving directory '/build/abpoa-1.4.1' +make[1]: Map '/build/abpoa-1.4.1' wordt verlaten dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild -dpkg-deb: building package 'abpoa' in '../abpoa_1.4.1-3_arm64.deb'. -dpkg-deb: building package 'python3-pyabpoa-dbgsym' in '../python3-pyabpoa-dbgsym_1.4.1-3_arm64.deb'. -dpkg-deb: building package 'abpoa-dbgsym' in '../abpoa-dbgsym_1.4.1-3_arm64.deb'. -dpkg-deb: building package 'python3-pyabpoa' in '../python3-pyabpoa_1.4.1-3_arm64.deb'. +dpkg-deb: pakket 'abpoa' wordt gebouwd in '../abpoa_1.4.1-3_arm64.deb'. +dpkg-deb: pakket 'abpoa-dbgsym' wordt gebouwd in '../abpoa-dbgsym_1.4.1-3_arm64.deb'. +dpkg-deb: pakket 'python3-pyabpoa' wordt gebouwd in '../python3-pyabpoa_1.4.1-3_arm64.deb'. +dpkg-deb: pakket 'python3-pyabpoa-dbgsym' wordt gebouwd in '../python3-pyabpoa-dbgsym_1.4.1-3_arm64.deb'. dpkg-genbuildinfo --build=binary -O../abpoa_1.4.1-3_arm64.buildinfo dpkg-genchanges --build=binary -O../abpoa_1.4.1-3_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -1516,12 +1559,14 @@ 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/17690/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/17690/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/29525 and its subdirectories -I: Current time: Thu Jun 8 19:28:47 -12 2023 -I: pbuilder-time-stamp: 1686295727 +I: removing directory /srv/workspace/pbuilder/17690 and its subdirectories +I: Current time: Fri Jul 12 03:54:17 +14 2024 +I: pbuilder-time-stamp: 1720706057