Diff of the two buildlogs: -- --- b1/build.log 2024-04-29 02:59:25.505866411 +0000 +++ b2/build.log 2024-04-29 03:04:43.956320137 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sun Apr 28 14:54:13 -12 2024 -I: pbuilder-time-stamp: 1714359253 +I: Current time: Sun Jun 1 23:22:32 +14 2025 +I: pbuilder-time-stamp: 1748769752 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -30,52 +30,84 @@ dpkg-source: info: applying ignore-warnings-in-tests.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/356965/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/4036091/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 1 09:22 /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/4036091/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/4036091/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='trixie' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='83eb9765f0de48d58568992fbef9c0de' - 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='356965' - PS1='# ' - PS2='> ' + INVOCATION_ID=137ce384aaaf4c70b70b7987d1483512 + 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=4036091 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.dpyyi7cR/pbuilderrc_LVFh --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.dpyyi7cR/b1 --logfile b1/build.log cnvkit_0.9.10-2.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.dpyyi7cR/pbuilderrc_FjFD --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.dpyyi7cR/b2 --logfile b2/build.log cnvkit_0.9.10-2.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 codethink02-arm64 6.1.0-20-cloud-arm64 #1 SMP Debian 6.1.85-1 (2024-04-11) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-20-cloud-arm64 #1 SMP Debian 6.1.85-1 (2024-04-11) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Apr 21 07:15 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/356965/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 May 26 17:47 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/4036091/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -527,7 +559,7 @@ Get: 205 http://deb.debian.org/debian trixie/main arm64 r-base-core arm64 4.3.2-1 [26.5 MB] Get: 206 http://deb.debian.org/debian trixie/main arm64 r-bioc-biocgenerics all 0.48.1-2 [597 kB] Get: 207 http://deb.debian.org/debian trixie/main arm64 r-bioc-dnacopy arm64 1.76.0-1 [377 kB] -Fetched 173 MB in 1s (173 MB/s) +Fetched 173 MB in 1s (256 MB/s) debconf: delaying package configuration, since apt-utils is not installed dpkg: libdb5.3:arm64: dependency problems, but removing anyway as you requested: libperl5.38:arm64 depends on libdb5.3. @@ -1218,8 +1250,8 @@ Setting up tzdata (2024a-3) ... Current default time zone: 'Etc/UTC' -Local time is now: Mon Apr 29 02:54:48 UTC 2024. -Universal Time is now: Mon Apr 29 02:54:48 UTC 2024. +Local time is now: Sun Jun 1 09:23:08 UTC 2025. +Universal Time is now: Sun Jun 1 09:23:08 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up unicode-data (15.1.0-1) ... @@ -1422,7 +1454,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/cnvkit-0.9.10/ && 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 > ../cnvkit_0.9.10-2_source.changes +I: user script /srv/workspace/pbuilder/4036091/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/4036091/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/cnvkit-0.9.10/ && 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 > ../cnvkit_0.9.10-2_source.changes dpkg-buildpackage: info: source package cnvkit dpkg-buildpackage: info: source version 0.9.10-2 dpkg-buildpackage: info: source distribution unstable @@ -1610,7 +1646,7 @@ Copying CNVkit.egg-info to build/bdist.linux-aarch64/wheel/CNVkit-0.9.10.egg-info running install_scripts creating build/bdist.linux-aarch64/wheel/CNVkit-0.9.10.dist-info/WHEEL -creating '/build/reproducible-path/cnvkit-0.9.10/.pybuild/cpython3_3.12_cnvkit/.tmp-an4l895r/CNVkit-0.9.10-py3-none-any.whl' and adding 'build/bdist.linux-aarch64/wheel' to it +creating '/build/reproducible-path/cnvkit-0.9.10/.pybuild/cpython3_3.12_cnvkit/.tmp-l0oyg8bg/CNVkit-0.9.10-py3-none-any.whl' and adding 'build/bdist.linux-aarch64/wheel' to it adding 'cnvlib/__init__.py' adding 'cnvlib/_version.py' adding 'cnvlib/access.py' @@ -1773,7 +1809,7 @@ Copying CNVkit.egg-info to build/bdist.linux-aarch64/wheel/CNVkit-0.9.10.egg-info running install_scripts creating build/bdist.linux-aarch64/wheel/CNVkit-0.9.10.dist-info/WHEEL -creating '/build/reproducible-path/cnvkit-0.9.10/.pybuild/cpython3_3.11_cnvkit/.tmp-57b7le_f/CNVkit-0.9.10-py3-none-any.whl' and adding 'build/bdist.linux-aarch64/wheel' to it +creating '/build/reproducible-path/cnvkit-0.9.10/.pybuild/cpython3_3.11_cnvkit/.tmp-hkhrtn0w/CNVkit-0.9.10-py3-none-any.whl' and adding 'build/bdist.linux-aarch64/wheel' to it adding 'cnvlib/__init__.py' adding 'cnvlib/_version.py' adding 'cnvlib/access.py' @@ -1908,7 +1944,7 @@ return sep.join(pd.unique(elems)) -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html -======================= 64 passed, 46 warnings in 48.91s ======================= +======================= 64 passed, 46 warnings in 50.06s ======================= I: pybuild pybuild:308: ln -s /build/reproducible-path/cnvkit-0.9.10/data /build/reproducible-path/cnvkit-0.9.10/.pybuild/cpython3_3.11_cnvkit/build/data; I: pybuild base:311: cd /build/reproducible-path/cnvkit-0.9.10/.pybuild/cpython3_3.11_cnvkit/build; python3.11 -m pytest test ============================= test session starts ============================== @@ -1970,7 +2006,7 @@ return sep.join(pd.unique(elems)) -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html -======================= 64 passed, 46 warnings in 52.68s ======================= +======================= 64 passed, 46 warnings in 51.92s ======================= create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild @@ -2010,12 +2046,14 @@ 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/4036091/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/4036091/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/356965 and its subdirectories -I: Current time: Sun Apr 28 14:59:24 -12 2024 -I: pbuilder-time-stamp: 1714359564 +I: removing directory /srv/workspace/pbuilder/4036091 and its subdirectories +I: Current time: Sun Jun 1 23:27:42 +14 2025 +I: pbuilder-time-stamp: 1748770062