Diff of the two buildlogs: -- --- b1/build.log 2025-11-05 23:41:04.578108108 +0000 +++ b2/build.log 2025-11-05 23:42:58.778248138 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Dec 8 18:02:23 -12 2026 -I: pbuilder-time-stamp: 1796796143 +I: Current time: Thu Nov 6 13:41:06 +14 2025 +I: pbuilder-time-stamp: 1762386066 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -28,53 +28,85 @@ dpkg-source: info: applying posix_shell.patch I: using fakeroot in build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/1115161/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1973065/tmp/hooks/D01_modify_environment starting +debug: Running on codethink04-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 Nov 5 23:41 /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/1973065/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1973065/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' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='arm64' + 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]="3" [2]="3" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.3.3(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 nocheck' + 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='556143ddac5247a89429aa7543ac9e38' - 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='1115161' - PS1='# ' - PS2='> ' + INVOCATION_ID=ff7ecfc62eae45818982059911ffdbc8 + 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=1973065 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.GwPjApHC/pbuilderrc_FPND --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.GwPjApHC/b1 --logfile b1/build.log python-biom-format_2.1.17-1.dsc' - SUDO_GID='109' - SUDO_HOME='/var/lib/jenkins' - 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.GwPjApHC/pbuilderrc_vLOw --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.GwPjApHC/b2 --logfile b2/build.log python-biom-format_2.1.17-1.dsc' + SUDO_GID=109 + SUDO_HOME=/var/lib/jenkins + 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 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1115161/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1973065/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -373,7 +405,7 @@ Get: 225 http://deb.debian.org/debian unstable/main arm64 python3-pluggy all 1.6.0-1 [27.1 kB] Get: 226 http://deb.debian.org/debian unstable/main arm64 python3-pytest all 8.4.2-1 [266 kB] Get: 227 http://deb.debian.org/debian unstable/main arm64 python3-pytest-cov all 5.0.0-1 [26.8 kB] -Fetched 136 MB in 1s (216 MB/s) +Fetched 136 MB in 1s (125 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1: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 ... 19968 files and directories currently installed.) @@ -1110,8 +1142,8 @@ Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' -Local time is now: Wed Dec 9 06:02:51 UTC 2026. -Universal Time is now: Wed Dec 9 06:02:51 UTC 2026. +Local time is now: Wed Nov 5 23:41:43 UTC 2025. +Universal Time is now: Wed Nov 5 23:41:43 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up unicode-data (16.0.0-1) ... @@ -1329,7 +1361,11 @@ Solving dependencies... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/reproducible-path/python-biom-format-2.1.17/ && 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-biom-format_2.1.17-1_source.changes +I: user script /srv/workspace/pbuilder/1973065/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/1973065/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/python-biom-format-2.1.17/ && 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-biom-format_2.1.17-1_source.changes dpkg-buildpackage: info: source package python-biom-format dpkg-buildpackage: info: source version 2.1.17-1 dpkg-buildpackage: info: source distribution unstable @@ -1379,8 +1415,8 @@ ******************************************************************************** Please use a simple string containing a SPDX expression for `project.license`. You can also use `project.license-files`. (Both options available on setuptools>=77.0.0). - This deprecation is overdue, please update your project and remove deprecated - calls to avoid build errors in the future. + By 2026-Feb-18, you need to update your project and remove deprecated calls + or your builds will no longer be supported. See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** @@ -1906,7 +1942,7 @@ Copying biom_format.egg-info to build/bdist.linux-aarch64/wheel/./biom_format-2.1.17.egg-info running install_scripts creating build/bdist.linux-aarch64/wheel/biom_format-2.1.17.dist-info/WHEEL -creating '/build/reproducible-path/python-biom-format-2.1.17/.pybuild/cpython3_3.13_biom-format/.tmp-nxu11bxv/biom_format-2.1.17-cp313-cp313-linux_aarch64.whl' and adding 'build/bdist.linux-aarch64/wheel' to it +creating '/build/reproducible-path/python-biom-format-2.1.17/.pybuild/cpython3_3.13_biom-format/.tmp-7zlofyvc/biom_format-2.1.17-cp313-cp313-linux_aarch64.whl' and adding 'build/bdist.linux-aarch64/wheel' to it adding 'biom/__init__.py' adding 'biom/_filter.cpython-313-aarch64-linux-gnu.so' adding 'biom/_filter.pyx' @@ -2248,59 +2284,7 @@ The manual pages are in build/man. make[1]: Leaving directory '/build/reproducible-path/python-biom-format-2.1.17' - dh_auto_test -O--buildsystem=pybuild - pybuild --test --test-pytest -i python{version} -p 3.13 -I: pybuild pybuild:308: cp -r /build/reproducible-path/python-biom-format-2.1.17/examples /build/reproducible-path/python-biom-format-2.1.17/.pybuild/cpython3_3.13_biom-format/build -I: pybuild base:311: cd /build/reproducible-path/python-biom-format-2.1.17/.pybuild/cpython3_3.13_biom-format/build; python3.13 -m pytest -============================= test session starts ============================== -platform linux -- Python 3.13.9, pytest-8.4.2, pluggy-1.6.0 -rootdir: /build/reproducible-path/python-biom-format-2.1.17/.pybuild/cpython3_3.13_biom-format/build -configfile: pyproject.toml -testpaths: biom -plugins: cov-5.0.0, typeguard-4.4.4 -collected 384 items - -biom/tests/test_cli/test_add_metadata.py .... [ 1%] -biom/tests/test_cli/test_show_install_info.py . [ 1%] -biom/tests/test_cli/test_subset_table.py ..... [ 2%] -biom/tests/test_cli/test_summarize_table.py .. [ 3%] -biom/tests/test_cli/test_table_converter.py ...... [ 4%] -biom/tests/test_cli/test_table_normalizer.py . [ 4%] -biom/tests/test_cli/test_uc_processor.py ...... [ 6%] -biom/tests/test_cli/test_validate_table.py ....................... [ 12%] -biom/tests/test_err.py ..................... [ 17%] -biom/tests/test_parse.py ........................... [ 25%] -biom/tests/test_table.py ............................................... [ 37%] -..ssss.................................................................. [ 55%] -......sss............................................................... [ 74%] -........................................................................ [ 93%] -..... [ 94%] -biom/tests/test_util.py .................... [100%] - -=============================== warnings summary =============================== -biom/tests/test_cli/test_subset_table.py::TestSubsetTable::test_subset_observations_hdf5 -biom/tests/test_cli/test_subset_table.py::TestSubsetTable::test_subset_samples_hdf5 -biom/tests/test_table.py::TableTests::test_from_hdf5_observation_subset -biom/tests/test_table.py::TableTests::test_from_hdf5_sample_subset -biom/tests/test_table.py::TableTests::test_from_hdf5_subset_error -biom/tests/test_table.py::TableTests::test_from_hdf5_subset_error - /build/reproducible-path/python-biom-format-2.1.17/.pybuild/cpython3_3.13_biom-format/build/biom/table.py:4237: DeprecationWarning: `in1d` is deprecated. Use `np.isin` instead. - idx = np.in1d(source_ids, desired_ids) - -biom/tests/test_table.py::SupportTests::test_remove_empty_both -biom/tests/test_table.py::SupportTests::test_remove_empty_obs -biom/tests/test_table.py::SupportTests::test_remove_empty_sample - /usr/lib/python3/dist-packages/scipy/sparse/_index.py:210: SparseEfficiencyWarning: Changing the sparsity structure of a csr_matrix is expensive. lil and dok are more efficient. - self._set_arrayXarray(i, j, x) - -biom/tests/test_table.py::TableTests::test_nnz_issue_727 - /usr/lib/python3/dist-packages/scipy/sparse/_index.py:168: SparseEfficiencyWarning: Changing the sparsity structure of a csr_matrix is expensive. lil and dok are more efficient. - self._set_intXint(row, col, x.flat[0]) - --- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html -================= 377 passed, 7 skipped, 10 warnings in 6.69s ================== -I: pybuild pybuild:334: rm -rf /build/reproducible-path/python-biom-format-2.1.17/.pybuild/cpython3_3.13_biom-format/build/examples - rm -fr -- /tmp/dh-xdg-rundir-CWErjtZt +dh: command-omitted: The call to "dh_auto_test -O--buildsystem=pybuild" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild @@ -2328,11 +2312,11 @@ install -m0755 -d debian/python-biom-format-doc/usr/share/doc-base/ install -p -m0644 debian/python-biom-format-doc.doc-base debian/python-biom-format-doc/usr/share/doc-base/python-biom-format-doc.python-biom-format dh_sphinxdoc --indep - ln -sf ../../../../javascript/sphinxdoc/1.0/language_data.js debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/language_data.js +dh_sphinxdoc: warning: ignoring unknown JavaScript code: debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/copybutton.js ln -sf ../../../../javascript/sphinxdoc/1.0/sphinx_highlight.js debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/sphinx_highlight.js ln -sf ../../../../javascript/sphinxdoc/1.0/doctools.js debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/doctools.js -dh_sphinxdoc: warning: ignoring unknown JavaScript code: debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/copybutton.js ln -sf ../../../../javascript/sphinxdoc/1.0/searchtools.js debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/searchtools.js + ln -sf ../../../../javascript/sphinxdoc/1.0/language_data.js debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/language_data.js rm -rf debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/.doctrees rm -f debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/.buildinfo mv debian/python-biom-format-doc.substvars.new debian/python-biom-format-doc.substvars @@ -2393,7 +2377,6 @@ D: dh_python3 debhelper:174: source=python-biom-format, binary packages=['python3-biom-format'] D: dh_python3 dh_python3:205: processing package python3-biom-format... D: dh_python3 fs:50: moving files from debian/python3-biom-format/usr/lib/python3.13/dist-packages to debian/python3-biom-format/usr/lib/python3/dist-packages/ -D: dh_python3 fs:249: removing dist-packages/.pytest_cache D: dh_python3 fs:179: Writing INSTALLER in debian/python3-biom-format/usr/lib/python3/dist-packages/biom_format-2.1.17.dist-info D: dh_python3 fs:190: Deleting RECORD in debian/python3-biom-format/usr/lib/python3/dist-packages/biom_format-2.1.17.dist-info I: dh_python3 tools:114: replacing shebang in debian/python3-biom-format/usr/bin/biom @@ -2414,39 +2397,39 @@ D: dh_python3 pydist:175: trying to find dependency for h5py (python=None) D: dh_python3 pydist:209: dependency: module seems to be installed D: dh_python3 pydist:284: dependency: included in build-deps -D: dh_python3 depends:253: D={'python3 (<< 3.14)', 'python3-h5py', 'python3-numpy', 'python3:any', 'python3-scipy', 'python3-click', 'python3-pandas', 'python3 (>= 3.13~)'}; R=[]; S=[]; E=[], B=[]; RT=[] +D: dh_python3 depends:253: D={'python3-click', 'python3-numpy', 'python3-pandas', 'python3 (<< 3.14)', 'python3-h5py', 'python3:any', 'python3-scipy', 'python3 (>= 3.13~)'}; R=[]; S=[]; E=[], B=[]; RT=[] dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild - rm -f debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/language_data.js - ln -s ../../../../javascript/sphinxdoc/1.0/language_data.js debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/language_data.js rm -f debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/sphinx_highlight.js ln -s ../../../../javascript/sphinxdoc/1.0/sphinx_highlight.js debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/sphinx_highlight.js rm -f debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/doctools.js ln -s ../../../../javascript/sphinxdoc/1.0/doctools.js debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/doctools.js rm -f debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/searchtools.js ln -s ../../../../javascript/sphinxdoc/1.0/searchtools.js debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/searchtools.js + rm -f debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/language_data.js + ln -s ../../../../javascript/sphinxdoc/1.0/language_data.js debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/language_data.js dh_strip_nondeterminism -O--buildsystem=pybuild Using 1762288789 as canonical time Normalizing debian/python3-biom-format/usr/lib/python3/dist-packages/doc/_static/biom-format.png using File::StripNondeterminism::handlers::png Using 1762288789 as canonical time - Normalizing debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/file.png using File::StripNondeterminism::handlers::png - Normalizing debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/minus.png using File::StripNondeterminism::handlers::png + Normalizing debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/plus.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/bg-page.png using File::StripNondeterminism::handlers::png + Normalizing debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/minus.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/biom-format.png using File::StripNondeterminism::handlers::png - Normalizing debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/plus.png using File::StripNondeterminism::handlers::png - Normalizing debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/bullet_orange.png using File::StripNondeterminism::handlers::png + Normalizing debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/file.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/alert_warning_32.png using File::StripNondeterminism::handlers::png + Normalizing debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/bullet_orange.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_static/alert_info_32.png using File::StripNondeterminism::handlers::png Normalizing debian/python-biom-format-doc/usr/share/doc/python-biom-format-doc/html/_images/biom-format.png using File::StripNondeterminism::handlers::png dh_compress -O--buildsystem=pybuild cd debian/python3-biom-format cd debian/python-biom-format-doc - chmod a-x usr/share/doc/python3-biom-format/changelog usr/share/doc/python3-biom-format/changelog.Debian usr/share/man/man1/biom.1 chmod a-x usr/share/doc/python-biom-format-doc/changelog usr/share/doc/python-biom-format-doc/changelog.Debian - gzip -9nf usr/share/doc/python3-biom-format/changelog usr/share/doc/python3-biom-format/changelog.Debian usr/share/man/man1/biom.1 gzip -9nf usr/share/doc/python-biom-format-doc/changelog usr/share/doc/python-biom-format-doc/changelog.Debian cd '/build/reproducible-path/python-biom-format-2.1.17' + chmod a-x usr/share/doc/python3-biom-format/changelog usr/share/doc/python3-biom-format/changelog.Debian usr/share/man/man1/biom.1 + gzip -9nf usr/share/doc/python3-biom-format/changelog usr/share/doc/python3-biom-format/changelog.Debian usr/share/man/man1/biom.1 cd '/build/reproducible-path/python-biom-format-2.1.17' rm -f debian/python-biom-format-doc.debhelper.log debian/python3-biom-format.debhelper.log debian/rules override_dh_fixperms @@ -2457,9 +2440,9 @@ find debian/python-biom-format-doc/usr/share/doc -type f -a -true -a ! -regex 'debian/python-biom-format-doc/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-biom-format/usr/share/doc -type f -a -true -a ! -regex 'debian/python3-biom-format/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python-biom-format-doc/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 - find debian/python-biom-format-doc -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-biom-format/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/python3-biom-format/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/python-biom-format-doc -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-biom-format -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-biom-format/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/python3-biom-format/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w @@ -2472,11 +2455,6 @@ objcopy --compress-debug-sections debian/python3-biom-format/usr/lib/debug/.dwz/aarch64-linux-gnu/python3-biom-format.debug chmod 0644 -- debian/python3-biom-format/usr/lib/debug/.dwz/aarch64-linux-gnu/python3-biom-format.debug dh_strip -a -O--buildsystem=pybuild - install -m0755 -d debian/.debhelper/python3-biom-format/dbgsym-root/usr/lib/debug/.build-id/a1 - objcopy --only-keep-debug --compress-debug-sections debian/python3-biom-format/usr/lib/python3/dist-packages/biom/_filter.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-biom-format/dbgsym-root/usr/lib/debug/.build-id/a1/63ea0b4065333ecc2e605adf5cca85360998f7.debug - chmod 0644 -- debian/.debhelper/python3-biom-format/dbgsym-root/usr/lib/debug/.build-id/a1/63ea0b4065333ecc2e605adf5cca85360998f7.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-biom-format/usr/lib/python3/dist-packages/biom/_filter.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-biom-format/dbgsym-root/usr/lib/debug/.build-id/a1/63ea0b4065333ecc2e605adf5cca85360998f7.debug debian/python3-biom-format/usr/lib/python3/dist-packages/biom/_filter.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-biom-format/dbgsym-root/usr/lib/debug/.build-id/0c objcopy --only-keep-debug --compress-debug-sections debian/python3-biom-format/usr/lib/python3/dist-packages/biom/_subsample.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-biom-format/dbgsym-root/usr/lib/debug/.build-id/0c/c9f36258c075fec7d348a6b48034d67b8a1cfe.debug chmod 0644 -- debian/.debhelper/python3-biom-format/dbgsym-root/usr/lib/debug/.build-id/0c/c9f36258c075fec7d348a6b48034d67b8a1cfe.debug @@ -2487,6 +2465,11 @@ chmod 0644 -- debian/.debhelper/python3-biom-format/dbgsym-root/usr/lib/debug/.build-id/9e/53452cef3d2c31fd7e331722b3e367be6f4c22.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-biom-format/usr/lib/python3/dist-packages/biom/_transform.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-biom-format/dbgsym-root/usr/lib/debug/.build-id/9e/53452cef3d2c31fd7e331722b3e367be6f4c22.debug debian/python3-biom-format/usr/lib/python3/dist-packages/biom/_transform.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-biom-format/dbgsym-root/usr/lib/debug/.build-id/a1 + objcopy --only-keep-debug --compress-debug-sections debian/python3-biom-format/usr/lib/python3/dist-packages/biom/_filter.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-biom-format/dbgsym-root/usr/lib/debug/.build-id/a1/63ea0b4065333ecc2e605adf5cca85360998f7.debug + chmod 0644 -- debian/.debhelper/python3-biom-format/dbgsym-root/usr/lib/debug/.build-id/a1/63ea0b4065333ecc2e605adf5cca85360998f7.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-biom-format/usr/lib/python3/dist-packages/biom/_filter.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-biom-format/dbgsym-root/usr/lib/debug/.build-id/a1/63ea0b4065333ecc2e605adf5cca85360998f7.debug debian/python3-biom-format/usr/lib/python3/dist-packages/biom/_filter.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-biom-format/dbgsym-root/usr/lib/debug/.dwz cp --reflink=auto -a debian/python3-biom-format/usr/lib/debug/.dwz/aarch64-linux-gnu debian/.debhelper/python3-biom-format/dbgsym-root/usr/lib/debug/.dwz rm -fr debian/python3-biom-format/usr/lib/debug/.dwz @@ -2498,7 +2481,7 @@ rm -f debian/python3-biom-format/DEBIAN/shlibs dh_shlibdeps -a -O--buildsystem=pybuild install -m0755 -d debian/python3-biom-format/DEBIAN - dpkg-shlibdeps -Tdebian/python3-biom-format.substvars debian/python3-biom-format/usr/lib/python3/dist-packages/biom/_filter.cpython-313-aarch64-linux-gnu.so debian/python3-biom-format/usr/lib/python3/dist-packages/biom/_subsample.cpython-313-aarch64-linux-gnu.so debian/python3-biom-format/usr/lib/python3/dist-packages/biom/_transform.cpython-313-aarch64-linux-gnu.so + dpkg-shlibdeps -Tdebian/python3-biom-format.substvars debian/python3-biom-format/usr/lib/python3/dist-packages/biom/_subsample.cpython-313-aarch64-linux-gnu.so debian/python3-biom-format/usr/lib/python3/dist-packages/biom/_transform.cpython-313-aarch64-linux-gnu.so debian/python3-biom-format/usr/lib/python3/dist-packages/biom/_filter.cpython-313-aarch64-linux-gnu.so dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect @@ -2524,28 +2507,28 @@ echo misc:Depends= >> debian/python-biom-format-doc.substvars echo misc:Pre-Depends= >> debian/python-biom-format-doc.substvars dpkg-gencontrol -ppython-biom-format-doc -ldebian/changelog -Tdebian/python-biom-format-doc.substvars -cdebian/control -Pdebian/python-biom-format-doc -dpkg-gencontrol: warning: package python-biom-format-doc: substitution variable ${sphinxdoc:Built-Using} unused, but is defined - chmod 0644 -- debian/python-biom-format-doc/DEBIAN/control chmod 0644 -- debian/.debhelper/python3-biom-format/dbgsym-root/DEBIAN/control dpkg-gencontrol -ppython3-biom-format -ldebian/changelog -Tdebian/python3-biom-format.substvars -cdebian/control -Pdebian/python3-biom-format chmod 0644 -- debian/python3-biom-format/DEBIAN/control +dpkg-gencontrol: warning: package python-biom-format-doc: substitution variable ${sphinxdoc:Built-Using} unused, but is defined + chmod 0644 -- debian/python-biom-format-doc/DEBIAN/control dh_md5sums -O--buildsystem=pybuild - install -m0755 -d debian/python-biom-format-doc/DEBIAN install -m0755 -d debian/python3-biom-format/DEBIAN cd debian/python3-biom-format >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums - cd debian/python-biom-format-doc >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums - chmod 0644 -- debian/python-biom-format-doc/DEBIAN/md5sums + install -m0755 -d debian/python-biom-format-doc/DEBIAN chmod 0644 -- debian/python3-biom-format/DEBIAN/md5sums install -m0755 -d debian/.debhelper/python3-biom-format/dbgsym-root/DEBIAN + cd debian/python-biom-format-doc >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/.debhelper/python3-biom-format/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums + chmod 0644 -- debian/python-biom-format-doc/DEBIAN/md5sums chmod 0644 -- debian/.debhelper/python3-biom-format/dbgsym-root/DEBIAN/md5sums dh_builddeb -O--buildsystem=pybuild dpkg-deb --root-owner-group --build debian/python3-biom-format .. - dpkg-deb --root-owner-group --build debian/python-biom-format-doc .. dpkg-deb --root-owner-group --build debian/.debhelper/python3-biom-format/dbgsym-root .. -dpkg-deb: building package 'python-biom-format-doc' in '../python-biom-format-doc_2.1.17-1_all.deb'. -dpkg-deb: building package 'python3-biom-format' in '../python3-biom-format_2.1.17-1_arm64.deb'. + dpkg-deb --root-owner-group --build debian/python-biom-format-doc .. dpkg-deb: building package 'python3-biom-format-dbgsym' in '../python3-biom-format-dbgsym_2.1.17-1_arm64.deb'. +dpkg-deb: building package 'python3-biom-format' in '../python3-biom-format_2.1.17-1_arm64.deb'. +dpkg-deb: building package 'python-biom-format-doc' in '../python-biom-format-doc_2.1.17-1_all.deb'. dpkg-genbuildinfo --build=binary -O../python-biom-format_2.1.17-1_arm64.buildinfo dpkg-genchanges --build=binary -O../python-biom-format_2.1.17-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -2553,12 +2536,14 @@ 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/1973065/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1973065/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/1115161 and its subdirectories -I: Current time: Tue Dec 8 18:04:03 -12 2026 -I: pbuilder-time-stamp: 1796796243 +I: removing directory /srv/workspace/pbuilder/1973065 and its subdirectories +I: Current time: Thu Nov 6 13:42:58 +14 2025 +I: pbuilder-time-stamp: 1762386178