Diff of the two buildlogs: -- --- b1/build.log 2024-01-06 12:58:07.441776722 +0000 +++ b2/build.log 2024-01-06 13:00:30.119728157 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sat Jan 6 00:55:50 -12 2024 -I: pbuilder-time-stamp: 1704545750 +I: Current time: Sat Feb 8 09:21:10 +14 2025 +I: pbuilder-time-stamp: 1738956070 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration @@ -17,7 +17,7 @@ I: copying [./python-anndata_0.7.5+ds-3.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' -gpgv: keyblock resource '/tmp/dpkg-verify-sig.X5_gTyR2/trustedkeys.kbx': General error +gpgv: keyblock resource '/tmp/dpkg-verify-sig.BCnH2Tc4/trustedkeys.kbx': General error gpgv: Signature made Wed Feb 10 09:54:37 2021 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key @@ -30,49 +30,80 @@ dpkg-source: info: applying 32bit_test_fail_skip I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/746695/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3586009/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 Feb 7 19:21 /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/3586009/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3586009/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:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="1" [2]="4" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.1.4(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,-fixfilepath parallel=12 ' - DISTRIBUTION='bullseye' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=bullseye + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='6bc7b8188d2d48378ce1efc5c2c0e22b' - 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='746695' - PS1='# ' - PS2='> ' + INVOCATION_ID=8329b07be1c643ffba709c30babc4922 + 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=3586009 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.ffLYZFiq/pbuilderrc_YgsL --distribution bullseye --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.ffLYZFiq/b1 --logfile b1/build.log python-anndata_0.7.5+ds-3.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://192.168.101.104:3128' + 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.ffLYZFiq/pbuilderrc_9qku --distribution bullseye --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.ffLYZFiq/b2 --logfile b2/build.log python-anndata_0.7.5+ds-3.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://192.168.101.104:3128 I: uname -a - Linux codethink02-arm64 6.1.0-17-cloud-arm64 #1 SMP Debian 6.1.69-1 (2023-12-30) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-17-cloud-arm64 #1 SMP Debian 6.1.69-1 (2023-12-30) aarch64 GNU/Linux I: ls -l /bin total 5252 -rwxr-xr-x 1 root root 1282512 Mar 27 2022 bash @@ -132,7 +163,7 @@ -rwxr-xr-x 1 root root 43880 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 19208 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 114016 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Dec 7 09:24 sh -> dash + lrwxrwxrwx 1 root root 9 Feb 7 19:21 sh -> /bin/bash -rwxr-xr-x 1 root root 35656 Sep 22 2020 sleep -rwxr-xr-x 1 root root 72640 Sep 22 2020 stty -rwsr-xr-x 1 root root 67776 Jan 20 2022 su @@ -158,7 +189,7 @@ -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew -I: user script /srv/workspace/pbuilder/746695/tmp/hooks/D02_print_environment finished +I: user script /srv/workspace/pbuilder/3586009/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -346,7 +377,7 @@ Get: 112 http://deb.debian.org/debian bullseye/main arm64 python3-xlrd all 1.2.0-2 [98.8 kB] Get: 113 http://deb.debian.org/debian bullseye/main arm64 sphinx-rtd-theme-common all 0.5.1+dfsg-1 [995 kB] Get: 114 http://deb.debian.org/debian bullseye/main arm64 python3-zarr all 2.6.1+ds-1 [247 kB] -Fetched 59.2 MB in 1s (66.0 MB/s) +Fetched 59.2 MB in 0s (148 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 17734 files and directories currently installed.) @@ -715,8 +746,8 @@ Setting up tzdata (2021a-1+deb11u10) ... Current default time zone: 'Etc/UTC' -Local time is now: Sat Jan 6 12:56:11 UTC 2024. -Universal Time is now: Sat Jan 6 12:56:11 UTC 2024. +Local time is now: Fri Feb 7 19:21:28 UTC 2025. +Universal Time is now: Fri Feb 7 19:21:28 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20180224.1+nmu1) ... @@ -828,7 +859,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/python-anndata-0.7.5+ds/ && 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-anndata_0.7.5+ds-3_source.changes +I: user script /srv/workspace/pbuilder/3586009/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for bullseye +I: user script /srv/workspace/pbuilder/3586009/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/python-anndata-0.7.5+ds/ && 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-anndata_0.7.5+ds-3_source.changes dpkg-buildpackage: info: source package python-anndata dpkg-buildpackage: info: source version 0.7.5+ds-3 dpkg-buildpackage: info: source distribution unstable @@ -2472,13 +2507,6 @@ /build/reproducible-path/python-anndata-0.7.5+ds/.pybuild/cpython3_3.9_anndata/build/anndata/_io/h5ad.py:71: FutureWarning: The `force_dense` argument is deprecated. Use `as_dense` instead. warn( -.pybuild/cpython3_3.9_anndata/build/anndata/tests/test_helpers.py::test_assert_equal_raw -.pybuild/cpython3_3.9_anndata/build/anndata/tests/test_views.py::test_modify_view_component[scipy_csr-layers] -.pybuild/cpython3_3.9_anndata/build/anndata/tests/test_views.py::test_modify_view_component[scipy_csr-obsm] -.pybuild/cpython3_3.9_anndata/build/anndata/tests/test_views.py::test_modify_view_component[scipy_csr-varm] - /usr/lib/python3/dist-packages/scipy/sparse/_index.py:82: SparseEfficiencyWarning: Changing the sparsity structure of a csr_matrix is expensive. lil_matrix is more efficient. - self._set_intXint(row, col, x.flat[0]) - .pybuild/cpython3_3.9_anndata/build/anndata/tests/test_readwrite.py::test_readwrite_hdf5_empty[read_zarr-write_zarr-test_empty.zip] /usr/lib/python3.9/zipfile.py:1505: UserWarning: Duplicate name: 'obs/.zattrs' return self._open_to_write(zinfo, force_zip64=force_zip64) @@ -2491,6 +2519,12 @@ /build/reproducible-path/python-anndata-0.7.5+ds/.pybuild/cpython3_3.9_anndata/build/anndata/_io/read.py:70: FutureWarning: The xlrd engine is no longer maintained and is not supported when using pandas with python >= 3.9. However, the engine xlrd will continue to be allowed for the indefinite future. The openpyxl engine will be used if it is installed and the engine argument is not specified. Either install openpyxl or specify engine='xlrd' to silence this warning. df = read_excel(fspath(filename), sheet) +.pybuild/cpython3_3.9_anndata/build/anndata/tests/test_views.py::test_modify_view_component[scipy_csr-layers] +.pybuild/cpython3_3.9_anndata/build/anndata/tests/test_views.py::test_modify_view_component[scipy_csr-obsm] +.pybuild/cpython3_3.9_anndata/build/anndata/tests/test_views.py::test_modify_view_component[scipy_csr-varm] + /usr/lib/python3/dist-packages/scipy/sparse/_index.py:82: SparseEfficiencyWarning: Changing the sparsity structure of a csr_matrix is expensive. lil_matrix is more efficient. + self._set_intXint(row, col, x.flat[0]) + .pybuild/cpython3_3.9_anndata/build/anndata/tests/test_views.py::test_modify_view_component[scipy_csc-layers] .pybuild/cpython3_3.9_anndata/build/anndata/tests/test_views.py::test_modify_view_component[scipy_csc-obsm] .pybuild/cpython3_3.9_anndata/build/anndata/tests/test_views.py::test_modify_view_component[scipy_csc-varm] @@ -2502,7 +2536,7 @@ self._set_arrayXarray(i, j, x) -- Docs: https://docs.pytest.org/en/stable/warnings.html -===== 1448 passed, 18 skipped, 25 xfailed, 58 warnings in 86.36s (0:01:26) ===== +===== 1448 passed, 18 skipped, 25 xfailed, 57 warnings in 88.36s (0:01:28) ===== create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild @@ -2714,12 +2748,14 @@ 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/3586009/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3586009/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/746695 and its subdirectories -I: Current time: Sat Jan 6 00:58:06 -12 2024 -I: pbuilder-time-stamp: 1704545886 +I: removing directory /srv/workspace/pbuilder/3586009 and its subdirectories +I: Current time: Sat Feb 8 09:23:28 +14 2025 +I: pbuilder-time-stamp: 1738956208