Diff of the two buildlogs: -- --- b1/build.log 2023-04-11 19:06:04.401613389 +0000 +++ b2/build.log 2023-04-11 19:16:41.844202891 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Mon May 13 13:18:30 -12 2024 -I: pbuilder-time-stamp: 1715649510 +I: Current time: Wed Apr 12 09:06:10 +14 2023 +I: pbuilder-time-stamp: 1681239970 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 [./velvet_1.2.10+dfsg1.orig.tar.xz] I: copying [./velvet_1.2.10+dfsg1-8.debian.tar.xz] I: Extracting source -gpgv: Signature made Tue Nov 29 07:27:31 2022 -12 +gpgv: Signature made Wed Nov 30 09:27:31 2022 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key @@ -34,11 +34,20 @@ dpkg-source: info: applying 2to3.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/4743/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/23558/tmp/hooks/D01_modify_environment starting +debug: Running on codethink14-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 03:20 /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/23558/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/23558/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' @@ -48,38 +57,38 @@ 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='4743' + PPID='23558' 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.RENbWSXl/pbuilderrc_gsFt --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.RENbWSXl/b1 --logfile b1/build.log velvet_1.2.10+dfsg1-8.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.RENbWSXl/pbuilderrc_yfv8 --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.RENbWSXl/b2 --logfile b2/build.log --extrapackages usrmerge velvet_1.2.10+dfsg1-8.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 codethink11-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 May 12 04:50 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/4743/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Apr 11 00:24 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/23558/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -199,7 +208,7 @@ Get: 76 http://deb.debian.org/debian bookworm/main arm64 texlive-latex-base all 2022.20230122-2 [1181 kB] Get: 77 http://deb.debian.org/debian bookworm/main arm64 texlive-latex-recommended all 2022.20230122-2 [8880 kB] Get: 78 http://deb.debian.org/debian bookworm/main arm64 zlib1g-dev arm64 1:1.2.13.dfsg-1 [913 kB] -Fetched 73.8 MB in 1s (53.8 MB/s) +Fetched 73.8 MB in 1s (52.0 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (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.) @@ -544,8 +553,17 @@ 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/velvet-1.2.10+dfsg1/ && 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 > ../velvet_1.2.10+dfsg1-8_source.changes +I: user script /srv/workspace/pbuilder/23558/tmp/hooks/A99_set_merged_usr starting +Re-configuring usrmerge... +I: user script /srv/workspace/pbuilder/23558/tmp/hooks/A99_set_merged_usr finished +hostname: Temporary failure in name resolution +I: Running cd /build/velvet-1.2.10+dfsg1/ && 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 > ../velvet_1.2.10+dfsg1-8_source.changes dpkg-buildpackage: info: source package velvet dpkg-buildpackage: info: source version 1.2.10+dfsg1-8 dpkg-buildpackage: info: source distribution unstable @@ -3353,43 +3371,43 @@ gcc -g -O2 -ffile-prefix-map=/build/velvet-1.2.10+dfsg1=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -Wl,-z,relro -o velvetg obj/tightString.o obj/graph.o obj/run2.o obj/fibHeap.o obj/fib.o obj/concatenatedGraph.o obj/passageMarker.o obj/graphStats.o obj/correctedGraph.o obj/dfib.o obj/dfibHeap.o obj/recycleBin.o obj/readSet.o obj/binarySequences.o obj/shortReadPairs.o obj/scaffold.o obj/locallyCorrectedGraph.o obj/graphReConstruction.o obj/roadMap.o obj/preGraph.o obj/preGraphConstruction.o obj/concatenatedPreGraph.o obj/readCoherentGraph.o obj/utility.o obj/kmer.o obj/kmerOccurenceTable.o obj/allocArray.o obj/autoOpen.o -lz -lm gcc -g -O2 -ffile-prefix-map=/build/velvet-1.2.10+dfsg1=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -Wl,-z,relro -o velveth obj/tightString.o obj/run.o obj/recycleBin.o obj/splay.o obj/splayTable.o obj/readSet.o obj/binarySequences.o obj/utility.o obj/kmer.o obj/kmerOccurenceTable.o obj/autoOpen.o -lz -lm cd tests && ./run-tests.sh -[Mon May 13 13:27:03 2024] Running Velvet Test Suite -[Mon May 13 13:27:03 2024] Found ../velveth, ok -[Mon May 13 13:27:03 2024] Found ../velvetg, ok -[Mon May 13 13:27:03 2024] Found Sequences.31, ok -[Mon May 13 13:27:03 2024] Found Roadmaps.31, ok -[Mon May 13 13:27:03 2024] Found read1.fq.gz, ok -[Mon May 13 13:27:03 2024] Found read2.fq.gz, ok -[Mon May 13 13:27:03 2024] Found reads.fq.gz, ok -[Mon May 13 13:27:03 2024] Found read1.fa.gz, ok -[Mon May 13 13:27:03 2024] Found read2.fa.gz, ok -[Mon May 13 13:27:03 2024] Found reads.fa.gz, ok -[Mon May 13 13:27:03 2024] making test folder: velvet.test.4qEZsx -[Mon May 13 13:27:03 2024] running test 1 of 5: fasta_eq_fastq_ascii.t -[Mon May 13 13:27:06 2024] ok -[Mon May 13 13:27:06 2024] ok -[Mon May 13 13:27:06 2024] ok -[Mon May 13 13:27:06 2024] ok -[Mon May 13 13:27:06 2024] passed test 1 -[Mon May 13 13:27:06 2024] running test 2 of 5: fasta_eq_fastq_binary.t -[Mon May 13 13:27:09 2024] ok -[Mon May 13 13:27:09 2024] ok -[Mon May 13 13:27:09 2024] passed test 2 -[Mon May 13 13:27:09 2024] running test 3 of 5: fmt_auto_mode.t -[Mon May 13 13:27:12 2024] ok -[Mon May 13 13:27:12 2024] ok -[Mon May 13 13:27:12 2024] passed test 3 -[Mon May 13 13:27:12 2024] running test 4 of 5: interleaved_eq_separate.t -[Mon May 13 13:27:19 2024] ok -[Mon May 13 13:27:19 2024] ok -[Mon May 13 13:27:19 2024] passed test 4 -[Mon May 13 13:27:19 2024] running test 5 of 5: mismatched_separates.t -[Mon May 13 13:27:19 2024] ok -[Mon May 13 13:27:19 2024] ok -[Mon May 13 13:27:19 2024] passed test 5 -[Mon May 13 13:27:19 2024] removing test folder: velvet.test.4qEZsx -[Mon May 13 13:27:19 2024] passed all 5 tests -[Mon May 13 13:27:19 2024] hooray! +[Wed Apr 12 09:14:46 2023] Running Velvet Test Suite +[Wed Apr 12 09:14:46 2023] Found ../velveth, ok +[Wed Apr 12 09:14:46 2023] Found ../velvetg, ok +[Wed Apr 12 09:14:46 2023] Found Sequences.31, ok +[Wed Apr 12 09:14:46 2023] Found Roadmaps.31, ok +[Wed Apr 12 09:14:46 2023] Found read1.fq.gz, ok +[Wed Apr 12 09:14:46 2023] Found read2.fq.gz, ok +[Wed Apr 12 09:14:46 2023] Found reads.fq.gz, ok +[Wed Apr 12 09:14:46 2023] Found read1.fa.gz, ok +[Wed Apr 12 09:14:46 2023] Found read2.fa.gz, ok +[Wed Apr 12 09:14:46 2023] Found reads.fa.gz, ok +[Wed Apr 12 09:14:46 2023] making test folder: velvet.test.SY83fE +[Wed Apr 12 09:14:46 2023] running test 1 of 5: fasta_eq_fastq_ascii.t +[Wed Apr 12 09:14:49 2023] ok +[Wed Apr 12 09:14:49 2023] ok +[Wed Apr 12 09:14:49 2023] ok +[Wed Apr 12 09:14:49 2023] ok +[Wed Apr 12 09:14:49 2023] passed test 1 +[Wed Apr 12 09:14:49 2023] running test 2 of 5: fasta_eq_fastq_binary.t +[Wed Apr 12 09:14:52 2023] ok +[Wed Apr 12 09:14:52 2023] ok +[Wed Apr 12 09:14:52 2023] passed test 2 +[Wed Apr 12 09:14:52 2023] running test 3 of 5: fmt_auto_mode.t +[Wed Apr 12 09:14:55 2023] ok +[Wed Apr 12 09:14:55 2023] ok +[Wed Apr 12 09:14:55 2023] passed test 3 +[Wed Apr 12 09:14:55 2023] running test 4 of 5: interleaved_eq_separate.t +[Wed Apr 12 09:15:02 2023] ok +[Wed Apr 12 09:15:02 2023] ok +[Wed Apr 12 09:15:02 2023] passed test 4 +[Wed Apr 12 09:15:02 2023] running test 5 of 5: mismatched_separates.t +[Wed Apr 12 09:15:02 2023] ok +[Wed Apr 12 09:15:02 2023] ok +[Wed Apr 12 09:15:02 2023] passed test 5 +[Wed Apr 12 09:15:02 2023] removing test folder: velvet.test.SY83fE +[Wed Apr 12 09:15:02 2023] passed all 5 tests +[Wed Apr 12 09:15:02 2023] hooray! make[1]: Leaving directory '/build/velvet-1.2.10+dfsg1' create-stamp debian/debhelper-build-stamp dh_testroot -O--no-parallel @@ -3423,12 +3441,12 @@ dh_gencontrol -O--no-parallel dh_md5sums -O--no-parallel dh_builddeb -O--no-parallel +dpkg-deb: building package 'velvet-tests' in '../velvet-tests_1.2.10+dfsg1-8_all.deb'. dpkg-deb: building package 'velvet' in '../velvet_1.2.10+dfsg1-8_arm64.deb'. dpkg-deb: building package 'velvet-dbgsym' in '../velvet-dbgsym_1.2.10+dfsg1-8_arm64.deb'. +dpkg-deb: building package 'velvet-long-dbgsym' in '../velvet-long-dbgsym_1.2.10+dfsg1-8_arm64.deb'. dpkg-deb: building package 'velvet-long' in '../velvet-long_1.2.10+dfsg1-8_arm64.deb'. -dpkg-deb: building package 'velvet-tests' in '../velvet-tests_1.2.10+dfsg1-8_all.deb'. dpkg-deb: building package 'velvet-example' in '../velvet-example_1.2.10+dfsg1-8_all.deb'. -dpkg-deb: building package 'velvet-long-dbgsym' in '../velvet-long-dbgsym_1.2.10+dfsg1-8_arm64.deb'. dpkg-genbuildinfo --build=binary -O../velvet_1.2.10+dfsg1-8_arm64.buildinfo dpkg-genchanges --build=binary -O../velvet_1.2.10+dfsg1-8_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -3436,12 +3454,14 @@ 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/23558/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/23558/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/4743 and its subdirectories -I: Current time: Mon May 13 13:29:02 -12 2024 -I: pbuilder-time-stamp: 1715650142 +I: removing directory /srv/workspace/pbuilder/23558 and its subdirectories +I: Current time: Wed Apr 12 09:16:40 +14 2023 +I: pbuilder-time-stamp: 1681240600