Diff of the two buildlogs: -- --- b1/build.log 2024-11-16 17:10:23.300939101 +0000 +++ b2/build.log 2024-11-16 17:21:18.743089707 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Dec 19 11:27:15 -12 2025 -I: pbuilder-time-stamp: 1766186835 +I: Current time: Sat Dec 20 13:33:26 +14 2025 +I: pbuilder-time-stamp: 1766187206 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -33,52 +33,84 @@ dpkg-source: info: applying 416.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/370580/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/4063000/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 Dec 19 23:33 /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/4063000/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/4063000/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]="32" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.32(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=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='b20759279a4b45f9ba5f2e93d3e9bfd5' - 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='370580' - PS1='# ' - PS2='> ' + INVOCATION_ID=1cbc6f6a067f4a48bcdfd3bb4776d147 + 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=4063000 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.DcRWI6YT/pbuilderrc_uMJX --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.DcRWI6YT/b1 --logfile b1/build.log python-pybedtools_0.10.0-2.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.DcRWI6YT/pbuilderrc_ZTze --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.DcRWI6YT/b2 --logfile b2/build.log python-pybedtools_0.10.0-2.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 codethink03-arm64 6.1.0-27-cloud-arm64 #1 SMP Debian 6.1.115-1 (2024-11-01) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-27-cloud-arm64 #1 SMP Debian 6.1.115-1 (2024-11-01) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/370580/tmp/hooks/D02_print_environment finished +I: user script /srv/workspace/pbuilder/4063000/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -379,7 +411,7 @@ Get: 229 http://deb.debian.org/debian unstable/main arm64 unzip arm64 6.0-28+b1 [158 kB] Get: 230 http://deb.debian.org/debian unstable/main arm64 xdg-utils all 1.1.3-4.1 [75.5 kB] Get: 231 http://deb.debian.org/debian unstable/main arm64 r-base-core arm64 4.4.2-1 [28.0 MB] -Fetched 172 MB in 1s (167 MB/s) +Fetched 172 MB in 1s (115 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-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 ... 20084 files and directories currently installed.) @@ -1133,8 +1165,8 @@ Setting up tzdata (2024b-3) ... Current default time zone: 'Etc/UTC' -Local time is now: Fri Dec 19 23:27:50 UTC 2025. -Universal Time is now: Fri Dec 19 23:27:50 UTC 2025. +Local time is now: Fri Dec 19 23:34:25 UTC 2025. +Universal Time is now: Fri Dec 19 23:34:25 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up unicode-data (15.1.0-1) ... @@ -1354,7 +1386,11 @@ 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_0.10.0-2_source.changes +I: user script /srv/workspace/pbuilder/4063000/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/4063000/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_0.10.0-2_source.changes dpkg-buildpackage: info: source package python-pybedtools dpkg-buildpackage: info: source version 0.10.0-2 dpkg-buildpackage: info: source distribution unstable @@ -2850,7 +2886,7 @@ .................................................................... [ 99%] pybedtools/test/test_pathlib.py ... [100%] -================ 506 passed, 2 deselected, 3 xfailed in 20.58s ================= +================ 506 passed, 2 deselected, 3 xfailed in 51.20s ================= 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 @@ -3166,36 +3202,44 @@ done running tests... -Document: each --------------- +Document: intervals +------------------- +1 items passed all tests: + 50 tests in default +50 tests in 1 items. +50 passed and 0 failed. +Test passed. + +Document: topical-low-level-ops +------------------------------- 1 items passed all tests: 6 tests in default 6 tests in 1 items. 6 passed and 0 failed. Test passed. -Document: topical-genome ------------------------- +Document: topical-iterators +--------------------------- 1 items passed all tests: - 13 tests in default -13 tests in 1 items. -13 passed and 0 failed. + 20 tests in default +20 tests in 1 items. +20 passed and 0 failed. Test passed. -Document: topical-create-a-bedtool ----------------------------------- +Document: filtering +------------------- 1 items passed all tests: - 10 tests in default -10 tests in 1 items. -10 passed and 0 failed. + 8 tests in default +8 tests in 1 items. +8 passed and 0 failed. Test passed. -Document: topical-design-principles ------------------------------------ +Document: save-results +---------------------- 1 items passed all tests: - 15 tests in default -15 tests in 1 items. -15 passed and 0 failed. + 8 tests in default +8 tests in 1 items. +8 passed and 0 failed. Test passed. Document: history @@ -3206,20 +3250,28 @@ 10 passed and 0 failed. Test passed. -Document: save-results ----------------------- +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: intersections +----------------------- 1 items passed all tests: 8 tests in default 8 tests in 1 items. 8 passed and 0 failed. Test passed. -Document: intervals -------------------- +Document: default-arguments +--------------------------- 1 items passed all tests: - 50 tests in default -50 tests in 1 items. -50 passed and 0 failed. + 13 tests in default +13 tests in 1 items. +13 passed and 0 failed. Test passed. Document: piping @@ -3230,68 +3282,52 @@ 17 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-bam ---------------------- +Document: topical-design-principles +----------------------------------- 1 items passed all tests: 15 tests in default 15 tests in 1 items. 15 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: topical-low-level-ops -------------------------------- +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-iterators ---------------------------- +Document: topical-create-a-bedtool +---------------------------------- 1 items passed all tests: - 20 tests in default -20 tests in 1 items. -20 passed and 0 failed. + 10 tests in default +10 tests in 1 items. +10 passed and 0 failed. Test passed. -Document: filtering -------------------- +Document: topical-random +------------------------ 1 items passed all tests: - 8 tests in default -8 tests in 1 items. -8 passed and 0 failed. + 10 tests in default +10 tests in 1 items. +10 passed and 0 failed. Test passed. -Document: default-arguments ---------------------------- +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: topical-random +Document: topical-saving ------------------------ 1 items passed all tests: - 10 tests in default -10 tests in 1 items. -10 passed and 0 failed. + 14 tests in default +14 tests in 1 items. +14 passed and 0 failed. Test passed. Doctest summary @@ -3349,7 +3385,7 @@ .................................................................... [ 99%] pybedtools/test/test_pathlib.py ... [100%] -================ 506 passed, 2 deselected, 3 xfailed in 20.41s ================= +================ 506 passed, 2 deselected, 3 xfailed in 53.98s ================= 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 @@ -3665,56 +3701,88 @@ done running tests... -Document: topical-random ------------------------- +Document: filtering +------------------- 1 items passed all tests: - 10 tests in default -10 tests in 1 items. -10 passed and 0 failed. + 8 tests in default +8 tests in 1 items. +8 passed and 0 failed. Test passed. -Document: intersections ------------------------ +Document: piping +---------------- +1 items passed all tests: + 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-create-a-bedtool ----------------------------------- +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: history +----------------- 1 items passed all tests: 10 tests in default 10 tests in 1 items. 10 passed and 0 failed. Test passed. -Document: topical-low-level-ops -------------------------------- +Document: intervals +------------------- 1 items passed all tests: - 6 tests in default -6 tests in 1 items. -6 passed and 0 failed. + 50 tests in default +50 tests in 1 items. +50 passed and 0 failed. Test passed. -Document: topical-bam ---------------------- +Document: topical-design-principles +----------------------------------- 1 items passed all tests: 15 tests in default 15 tests in 1 items. 15 passed and 0 failed. Test passed. -Document: history ------------------ +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: topical-random +------------------------ 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: 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 +----------------------- 1 items passed all tests: 8 tests in default 8 tests in 1 items. @@ -3729,22 +3797,6 @@ 20 passed and 0 failed. Test passed. -Document: intervals -------------------- -1 items passed all tests: - 50 tests in default -50 tests in 1 items. -50 passed and 0 failed. -Test passed. - -Document: filtering -------------------- -1 items passed all tests: - 8 tests in default -8 tests in 1 items. -8 passed and 0 failed. -Test passed. - Document: topical-saving ------------------------ 1 items passed all tests: @@ -3753,46 +3805,30 @@ 14 passed and 0 failed. Test passed. -Document: default-arguments ---------------------------- +Document: each +-------------- 1 items passed all tests: - 13 tests in default -13 tests in 1 items. -13 passed and 0 failed. + 6 tests in default +6 tests in 1 items. +6 passed and 0 failed. Test passed. -Document: topical-design-principles ------------------------------------ +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: topical-genome ------------------------- -1 items passed all tests: - 13 tests in default -13 tests in 1 items. -13 passed and 0 failed. -Test passed. - -Document: each --------------- +Document: topical-low-level-ops +------------------------------- 1 items passed all tests: 6 tests in default 6 tests in 1 items. 6 passed and 0 failed. Test passed. -Document: piping ----------------- -1 items passed all tests: - 17 tests in default -17 tests in 1 items. -17 passed and 0 failed. -Test passed. - Doctest summary =============== 223 tests @@ -4418,8 +4454,8 @@ dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'pybedtools-bin' in '../pybedtools-bin_0.10.0-2_all.deb'. -dpkg-deb: building package 'python3-pybedtools' in '../python3-pybedtools_0.10.0-2_arm64.deb'. dpkg-deb: building package 'python3-pybedtools-dbgsym' in '../python3-pybedtools-dbgsym_0.10.0-2_arm64.deb'. +dpkg-deb: building package 'python3-pybedtools' in '../python3-pybedtools_0.10.0-2_arm64.deb'. dpkg-deb: building package 'python-pybedtools-doc' in '../python-pybedtools-doc_0.10.0-2_all.deb'. dpkg-genbuildinfo --build=binary -O../python-pybedtools_0.10.0-2_arm64.buildinfo dpkg-genchanges --build=binary -O../python-pybedtools_0.10.0-2_arm64.changes @@ -4429,12 +4465,14 @@ 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/4063000/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/4063000/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/370580 and its subdirectories -I: Current time: Fri Dec 19 11:33:21 -12 2025 -I: pbuilder-time-stamp: 1766187201 +I: removing directory /srv/workspace/pbuilder/4063000 and its subdirectories +I: Current time: Sat Dec 20 13:44:17 +14 2025 +I: pbuilder-time-stamp: 1766187857