Diff of the two buildlogs: -- --- b1/build.log 2024-05-25 11:40:59.528473945 +0000 +++ b2/build.log 2024-05-25 11:48:03.566434284 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri May 24 23:35:09 -12 2024 -I: pbuilder-time-stamp: 1716636909 +I: Current time: Sat Jun 28 08:04:02 +14 2025 +I: pbuilder-time-stamp: 1751047442 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -31,52 +31,84 @@ dpkg-source: info: applying yaml_safe_load.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/956916/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/4027193/tmp/hooks/D01_modify_environment starting +debug: Running on codethink01-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 Jun 27 18:04 /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/4027193/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/4027193/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='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]="21" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.21(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='025f313bfc044fb88add3f5562f52730' - 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='956916' - PS1='# ' - PS2='> ' + INVOCATION_ID=ea693551baa04dde8185004afe090d9d + 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=4027193 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.4SYcjEtC/pbuilderrc_Ji5D --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.4SYcjEtC/b1 --logfile b1/build.log python-pybedtools_0.10.0-1.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + 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.4SYcjEtC/pbuilderrc_qXo3 --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.4SYcjEtC/b2 --logfile b2/build.log python-pybedtools_0.10.0-1.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink04-arm64 6.1.0-21-cloud-arm64 #1 SMP Debian 6.1.90-1 (2024-05-03) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-21-cloud-arm64 #1 SMP Debian 6.1.90-1 (2024-05-03) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 May 25 07:43 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/956916/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Jun 27 14:05 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/4027193/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -364,7 +396,7 @@ Get: 216 http://deb.debian.org/debian unstable/main arm64 unzip arm64 6.0-28 [157 kB] Get: 217 http://deb.debian.org/debian unstable/main arm64 xdg-utils all 1.1.3-4.1 [75.5 kB] Get: 218 http://deb.debian.org/debian unstable/main arm64 r-base-core arm64 4.4.0-2 [27.9 MB] -Fetched 175 MB in 1s (216 MB/s) +Fetched 175 MB in 2s (106 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 ... 19763 files and directories currently installed.) @@ -1076,8 +1108,8 @@ Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' -Local time is now: Sat May 25 11:35:46 UTC 2024. -Universal Time is now: Sat May 25 11:35:46 UTC 2024. +Local time is now: Fri Jun 27 18:05:31 UTC 2025. +Universal Time is now: Fri Jun 27 18:05:31 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up unicode-data (15.1.0-1) ... @@ -1288,7 +1320,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/python-pybedtools-0.10.0/ && 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 > ../python-pybedtools_0.10.0-1_source.changes +I: user script /srv/workspace/pbuilder/4027193/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/4027193/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/python-pybedtools-0.10.0/ && 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 > ../python-pybedtools_0.10.0-1_source.changes dpkg-buildpackage: info: source package python-pybedtools dpkg-buildpackage: info: source version 0.10.0-1 dpkg-buildpackage: info: source distribution unstable @@ -2386,7 +2422,7 @@ .................................................................... [ 99%] pybedtools/test/test_pathlib.py ... [100%] -================ 506 passed, 2 deselected, 3 xfailed in 16.15s ================= +================ 506 passed, 2 deselected, 3 xfailed in 19.30s ================= I: pybuild pybuild:334: cd /build/reproducible-path/python-pybedtools-0.10.0/docs ; make clean doctest make[1]: Entering directory '/build/reproducible-path/python-pybedtools-0.10.0/docs' rm -rf build/* source/autodocs/*.rst @@ -2416,46 +2452,14 @@ checking consistency... done running tests... -Document: default-arguments ---------------------------- -1 items passed all tests: - 13 tests in default -13 tests in 1 items. -13 passed and 0 failed. -Test passed. - -Document: topical-iterators ---------------------------- -1 items passed all tests: - 20 tests in default -20 tests in 1 items. -20 passed and 0 failed. -Test passed. - -Document: history ------------------ -1 items passed all tests: - 10 tests in default -10 tests in 1 items. -10 passed and 0 failed. -Test passed. - -Document: save-results ----------------------- +Document: intersections +----------------------- 1 items passed all tests: 8 tests in default 8 tests in 1 items. 8 passed and 0 failed. Test passed. -Document: each --------------- -1 items passed all tests: - 6 tests in default -6 tests in 1 items. -6 passed and 0 failed. -Test passed. - Document: topical-design-principles ----------------------------------- 1 items passed all tests: @@ -2464,28 +2468,52 @@ 15 passed and 0 failed. Test passed. -Document: topical-random +Document: topical-genome +------------------------ +1 items passed all tests: + 13 tests in default +13 tests in 1 items. +13 passed and 0 failed. +Test passed. + +Document: default-arguments +--------------------------- +1 items passed all tests: + 13 tests in default +13 tests in 1 items. +13 passed and 0 failed. +Test passed. + +Document: topical-saving ------------------------ 1 items passed all tests: + 14 tests in default +14 tests in 1 items. +14 passed and 0 failed. +Test passed. + +Document: topical-create-a-bedtool +---------------------------------- +1 items passed all tests: 10 tests in default 10 tests in 1 items. 10 passed and 0 failed. Test passed. -Document: intersections ------------------------ +Document: save-results +---------------------- 1 items passed all tests: 8 tests in default 8 tests in 1 items. 8 passed and 0 failed. Test passed. -Document: topical-saving ------------------------- +Document: topical-iterators +--------------------------- 1 items passed all tests: - 14 tests in default -14 tests in 1 items. -14 passed and 0 failed. + 20 tests in default +20 tests in 1 items. +20 passed and 0 failed. Test passed. Document: filtering @@ -2496,12 +2524,20 @@ 8 passed and 0 failed. Test passed. -Document: topical-low-level-ops -------------------------------- +Document: topical-bam +--------------------- 1 items passed all tests: - 6 tests in default -6 tests in 1 items. -6 passed and 0 failed. + 15 tests in default +15 tests in 1 items. +15 passed and 0 failed. +Test passed. + +Document: history +----------------- +1 items passed all tests: + 10 tests in default +10 tests in 1 items. +10 passed and 0 failed. Test passed. Document: piping @@ -2512,28 +2548,28 @@ 17 passed and 0 failed. Test passed. -Document: topical-genome +Document: topical-random ------------------------ 1 items passed all tests: - 13 tests in default -13 tests in 1 items. -13 passed and 0 failed. + 10 tests in default +10 tests in 1 items. +10 passed and 0 failed. Test passed. -Document: topical-bam ---------------------- +Document: each +-------------- 1 items passed all tests: - 15 tests in default -15 tests in 1 items. -15 passed and 0 failed. + 6 tests in default +6 tests in 1 items. +6 passed and 0 failed. Test passed. -Document: topical-create-a-bedtool ----------------------------------- +Document: topical-low-level-ops +------------------------------- 1 items passed all tests: - 10 tests in default -10 tests in 1 items. -10 passed and 0 failed. + 6 tests in default +6 tests in 1 items. +6 passed and 0 failed. Test passed. Document: intervals @@ -2598,7 +2634,7 @@ .................................................................... [ 99%] pybedtools/test/test_pathlib.py ... [100%] -================ 506 passed, 2 deselected, 3 xfailed in 16.09s ================= +================ 506 passed, 2 deselected, 3 xfailed in 19.55s ================= I: pybuild pybuild:334: cd /build/reproducible-path/python-pybedtools-0.10.0/docs ; make clean doctest make[1]: Entering directory '/build/reproducible-path/python-pybedtools-0.10.0/docs' rm -rf build/* source/autodocs/*.rst @@ -2628,40 +2664,24 @@ checking consistency... done running tests... -Document: save-results ----------------------- -1 items passed all tests: - 8 tests in default -8 tests in 1 items. -8 passed and 0 failed. -Test passed. - -Document: topical-bam ---------------------- -1 items passed all tests: - 15 tests in default -15 tests in 1 items. -15 passed and 0 failed. -Test passed. - -Document: filtering -------------------- +Document: intersections +----------------------- 1 items passed all tests: 8 tests in default 8 tests in 1 items. 8 passed and 0 failed. Test passed. -Document: topical-design-principles ------------------------------------ +Document: topical-low-level-ops +------------------------------- 1 items passed all tests: - 15 tests in default -15 tests in 1 items. -15 passed and 0 failed. + 6 tests in default +6 tests in 1 items. +6 passed and 0 failed. Test passed. -Document: topical-random ------------------------- +Document: history +----------------- 1 items passed all tests: 10 tests in default 10 tests in 1 items. @@ -2676,6 +2696,14 @@ 50 passed and 0 failed. Test passed. +Document: topical-saving +------------------------ +1 items passed all tests: + 14 tests in default +14 tests in 1 items. +14 passed and 0 failed. +Test passed. + Document: topical-genome ------------------------ 1 items passed all tests: @@ -2692,20 +2720,36 @@ 13 passed and 0 failed. Test passed. -Document: topical-low-level-ops -------------------------------- +Document: topical-bam +--------------------- 1 items passed all tests: - 6 tests in default -6 tests in 1 items. -6 passed and 0 failed. + 15 tests in default +15 tests in 1 items. +15 passed and 0 failed. Test passed. -Document: topical-saving ------------------------- +Document: piping +---------------- 1 items passed all tests: - 14 tests in default -14 tests in 1 items. -14 passed and 0 failed. + 17 tests in default +17 tests in 1 items. +17 passed and 0 failed. +Test passed. + +Document: save-results +---------------------- +1 items passed all tests: + 8 tests in default +8 tests in 1 items. +8 passed and 0 failed. +Test passed. + +Document: topical-iterators +--------------------------- +1 items passed all tests: + 20 tests in default +20 tests in 1 items. +20 passed and 0 failed. Test passed. Document: topical-create-a-bedtool @@ -2716,20 +2760,12 @@ 10 passed and 0 failed. Test passed. -Document: intersections ------------------------ -1 items passed all tests: - 8 tests in default -8 tests in 1 items. -8 passed and 0 failed. -Test passed. - -Document: piping ----------------- +Document: topical-random +------------------------ 1 items passed all tests: - 17 tests in default -17 tests in 1 items. -17 passed and 0 failed. + 10 tests in default +10 tests in 1 items. +10 passed and 0 failed. Test passed. Document: each @@ -2740,20 +2776,20 @@ 6 passed and 0 failed. Test passed. -Document: topical-iterators ---------------------------- +Document: filtering +------------------- 1 items passed all tests: - 20 tests in default -20 tests in 1 items. -20 passed and 0 failed. + 8 tests in default +8 tests in 1 items. +8 passed and 0 failed. Test passed. -Document: history ------------------ +Document: topical-design-principles +----------------------------------- 1 items passed all tests: - 10 tests in default -10 tests in 1 items. -10 passed and 0 failed. + 15 tests in default +15 tests in 1 items. +15 passed and 0 failed. Test passed. Doctest summary @@ -3377,10 +3413,10 @@ dpkg-gencontrol: warning: Depends field of package pybedtools-bin: substitution variable ${python3:Depends} used, but is not defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild -dpkg-deb: building package 'python3-pybedtools-dbgsym' in '../python3-pybedtools-dbgsym_0.10.0-1_arm64.deb'. +dpkg-deb: building package 'pybedtools-bin' in '../pybedtools-bin_0.10.0-1_all.deb'. dpkg-deb: building package 'python3-pybedtools' in '../python3-pybedtools_0.10.0-1_arm64.deb'. +dpkg-deb: building package 'python3-pybedtools-dbgsym' in '../python3-pybedtools-dbgsym_0.10.0-1_arm64.deb'. dpkg-deb: building package 'python-pybedtools-doc' in '../python-pybedtools-doc_0.10.0-1_all.deb'. -dpkg-deb: building package 'pybedtools-bin' in '../pybedtools-bin_0.10.0-1_all.deb'. dpkg-genbuildinfo --build=binary -O../python-pybedtools_0.10.0-1_arm64.buildinfo dpkg-genchanges --build=binary -O../python-pybedtools_0.10.0-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -3389,12 +3425,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/4027193/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/4027193/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/956916 and its subdirectories -I: Current time: Fri May 24 23:40:58 -12 2024 -I: pbuilder-time-stamp: 1716637258 +I: removing directory /srv/workspace/pbuilder/4027193 and its subdirectories +I: Current time: Sat Jun 28 08:11:02 +14 2025 +I: pbuilder-time-stamp: 1751047862