0s autopkgtest [15:38:53]: starting date and time: 2025-03-15 15:38:53+0000 0s autopkgtest [15:38:53]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [15:38:53]: host juju-7f2275-prod-proposed-migration-environment-9; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.85ywkeqw/out --timeout-copy=6000 --setup-commands 'ln -s /dev/null /etc/systemd/system/bluetooth.service; printf "http_proxy=http://squid.internal:3128\nhttps_proxy=http://squid.internal:3128\nno_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com,radosgw.ps5.canonical.com\n" >> /etc/environment' --apt-pocket=proposed=src:glibc --apt-upgrade python-biom-format --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu2 -- lxd -r lxd-armhf-10.145.243.58 lxd-armhf-10.145.243.58:autopkgtest/ubuntu/plucky/armhf 20s autopkgtest [15:39:13]: testbed dpkg architecture: armhf 22s autopkgtest [15:39:15]: testbed apt version: 2.9.33 26s autopkgtest [15:39:19]: @@@@@@@@@@@@@@@@@@@@ test bed setup 27s autopkgtest [15:39:20]: testbed release detected to be: None 35s autopkgtest [15:39:28]: updating testbed package index (apt update) 37s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 37s Get:2 http://ftpmaster.internal/ubuntu plucky InRelease [257 kB] 38s Get:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease [126 kB] 38s Get:4 http://ftpmaster.internal/ubuntu plucky-security InRelease [126 kB] 38s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.7 kB] 38s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [379 kB] 39s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB] 39s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf Packages [114 kB] 39s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf c-n-f Metadata [1832 B] 39s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted armhf c-n-f Metadata [116 B] 39s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf Packages [312 kB] 39s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf c-n-f Metadata [11.1 kB] 39s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf Packages [3472 B] 39s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf c-n-f Metadata [240 B] 39s Get:15 http://ftpmaster.internal/ubuntu plucky/multiverse Sources [299 kB] 40s Get:16 http://ftpmaster.internal/ubuntu plucky/universe Sources [21.0 MB] 66s Get:17 http://ftpmaster.internal/ubuntu plucky/main Sources [1394 kB] 67s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf Packages [1378 kB] 69s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf c-n-f Metadata [29.4 kB] 69s Get:20 http://ftpmaster.internal/ubuntu plucky/restricted armhf c-n-f Metadata [108 B] 69s Get:21 http://ftpmaster.internal/ubuntu plucky/universe armhf Packages [15.1 MB] 88s Get:22 http://ftpmaster.internal/ubuntu plucky/multiverse armhf Packages [172 kB] 90s Fetched 41.0 MB in 53s (777 kB/s) 91s Reading package lists... 97s autopkgtest [15:40:30]: upgrading testbed (apt dist-upgrade and autopurge) 98s Reading package lists... 99s Building dependency tree... 99s Reading state information... 99s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 99s Starting 2 pkgProblemResolver with broken count: 0 99s Done 100s Entering ResolveByKeep 100s 101s Calculating upgrade... 101s The following packages will be upgraded: 101s libc-bin libc6 locales pinentry-curses python3-jinja2 sos strace 101s 7 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 101s Need to get 8683 kB of archives. 101s After this operation, 23.6 kB of additional disk space will be used. 101s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc6 armhf 2.41-1ubuntu2 [2932 kB] 105s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc-bin armhf 2.41-1ubuntu2 [545 kB] 106s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf locales all 2.41-1ubuntu2 [4246 kB] 111s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf strace armhf 6.13+ds-1ubuntu1 [445 kB] 111s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf pinentry-curses armhf 1.3.1-2ubuntu3 [40.6 kB] 111s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 112s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf sos all 4.9.0-5 [365 kB] 112s Preconfiguring packages ... 113s Fetched 8683 kB in 11s (798 kB/s) 113s (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 ... 64655 files and directories currently installed.) 113s Preparing to unpack .../libc6_2.41-1ubuntu2_armhf.deb ... 113s Unpacking libc6:armhf (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 113s Setting up libc6:armhf (2.41-1ubuntu2) ... 113s (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 ... 64655 files and directories currently installed.) 113s Preparing to unpack .../libc-bin_2.41-1ubuntu2_armhf.deb ... 113s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 113s Setting up libc-bin (2.41-1ubuntu2) ... 114s (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 ... 64655 files and directories currently installed.) 114s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 114s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 114s Preparing to unpack .../strace_6.13+ds-1ubuntu1_armhf.deb ... 114s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 114s Preparing to unpack .../pinentry-curses_1.3.1-2ubuntu3_armhf.deb ... 114s Unpacking pinentry-curses (1.3.1-2ubuntu3) over (1.3.1-2ubuntu2) ... 114s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ... 114s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 114s Preparing to unpack .../archives/sos_4.9.0-5_all.deb ... 114s Unpacking sos (4.9.0-5) over (4.9.0-4) ... 114s Setting up sos (4.9.0-5) ... 115s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 115s Setting up locales (2.41-1ubuntu2) ... 116s Generating locales (this might take a while)... 117s en_US.UTF-8... done 117s Generation complete. 117s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 118s Setting up strace (6.13+ds-1ubuntu1) ... 118s Processing triggers for man-db (2.13.0-1) ... 119s Processing triggers for systemd (257.3-1ubuntu3) ... 121s Reading package lists... 122s Building dependency tree... 122s Reading state information... 122s Starting pkgProblemResolver with broken count: 0 122s Starting 2 pkgProblemResolver with broken count: 0 122s Done 122s Solving dependencies... 123s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 125s autopkgtest [15:40:58]: rebooting testbed after setup commands that affected boot 166s autopkgtest [15:41:39]: testbed running kernel: Linux 6.8.0-52-generic #53~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jan 15 18:10:51 UTC 2 192s autopkgtest [15:42:05]: @@@@@@@@@@@@@@@@@@@@ apt-source python-biom-format 221s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-biom-format 2.1.16-1build3 (dsc) [2498 B] 221s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-biom-format 2.1.16-1build3 (tar) [11.9 MB] 221s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-biom-format 2.1.16-1build3 (diff) [11.7 kB] 221s gpgv: Signature made Tue Mar 4 15:18:02 2025 UTC 221s gpgv: using RSA key 25E3FF2D7F469DBE7D0D4E50AFCFEC8E669CE1C2 221s gpgv: Can't check signature: No public key 221s dpkg-source: warning: cannot verify inline signature for ./python-biom-format_2.1.16-1build3.dsc: no acceptable signature found 221s autopkgtest [15:42:34]: testing package python-biom-format version 2.1.16-1build3 224s autopkgtest [15:42:37]: build not needed 228s autopkgtest [15:42:41]: test run-unit-test: preparing testbed 231s Reading package lists... 232s Building dependency tree... 232s Reading state information... 232s Starting pkgProblemResolver with broken count: 0 232s Starting 2 pkgProblemResolver with broken count: 0 232s Done 233s The following NEW packages will be installed: 233s libaec0 libblas3 libgfortran5 libhdf5-310 libhdf5-hl-310 libjs-jquery 233s libjs-sphinxdoc libjs-underscore liblapack3 liblbfgsb0 liblzf1 libsz2 233s python-biom-format-doc python3-biom-format python3-click python3-decorator 233s python3-h5py python3-h5py-serial python3-numpy python3-numpy-dev 233s python3-pandas python3-pandas-lib python3-pytz python3-scipy python3-tz 233s 0 upgraded, 25 newly installed, 0 to remove and 0 not upgraded. 233s Need to get 34.7 MB of archives. 233s After this operation, 137 MB of additional disk space will be used. 233s Get:1 http://ftpmaster.internal/ubuntu plucky/main armhf python3-numpy-dev armhf 1:2.2.3+ds-5 [141 kB] 234s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf libblas3 armhf 3.12.1-2 [132 kB] 234s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf libgfortran5 armhf 15-20250222-0ubuntu1 [330 kB] 234s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf liblapack3 armhf 3.12.1-2 [2091 kB] 236s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf python3-numpy armhf 1:2.2.3+ds-5 [3725 kB] 241s Get:6 http://ftpmaster.internal/ubuntu plucky/universe armhf libaec0 armhf 1.1.3-1 [20.8 kB] 241s Get:7 http://ftpmaster.internal/ubuntu plucky/universe armhf libsz2 armhf 1.1.3-1 [5302 B] 241s Get:8 http://ftpmaster.internal/ubuntu plucky/universe armhf libhdf5-310 armhf 1.14.5+repack-3 [1410 kB] 242s Get:9 http://ftpmaster.internal/ubuntu plucky/universe armhf libhdf5-hl-310 armhf 1.14.5+repack-3 [58.8 kB] 242s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 243s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 243s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf libjs-sphinxdoc all 8.1.3-4 [30.9 kB] 243s Get:13 http://ftpmaster.internal/ubuntu plucky/universe armhf liblbfgsb0 armhf 3.0+dfsg.4-1build1 [27.4 kB] 243s Get:14 http://ftpmaster.internal/ubuntu plucky/universe armhf liblzf1 armhf 3.6-4 [6554 B] 243s Get:15 http://ftpmaster.internal/ubuntu plucky/universe armhf python-biom-format-doc all 2.1.16-1build3 [57.5 kB] 243s Get:16 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-h5py-serial armhf 3.13.0-1 [1113 kB] 244s Get:17 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-h5py all 3.13.0-1 [7978 B] 244s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf python3-click all 8.2.0+0.really.8.1.8-1 [80.0 kB] 244s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf python3-pytz all 2025.1-3 [162 kB] 244s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf python3-tz all 2025.1-3 [1866 B] 244s Get:21 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-pandas-lib armhf 2.2.3+dfsg-8build1 [4877 kB] 250s Get:22 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-pandas all 2.2.3+dfsg-8build1 [3112 kB] 253s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf python3-decorator all 5.1.1-5 [10.1 kB] 253s Get:24 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-scipy armhf 1.14.1-4ubuntu2 [16.7 MB] 273s Get:25 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-biom-format armhf 2.1.16-1build3 [140 kB] 274s Fetched 34.7 MB in 40s (868 kB/s) 274s Selecting previously unselected package python3-numpy-dev:armhf. 274s (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 ... 64655 files and directories currently installed.) 274s Preparing to unpack .../00-python3-numpy-dev_1%3a2.2.3+ds-5_armhf.deb ... 274s Unpacking python3-numpy-dev:armhf (1:2.2.3+ds-5) ... 274s Selecting previously unselected package libblas3:armhf. 274s Preparing to unpack .../01-libblas3_3.12.1-2_armhf.deb ... 274s Unpacking libblas3:armhf (3.12.1-2) ... 274s Selecting previously unselected package libgfortran5:armhf. 274s Preparing to unpack .../02-libgfortran5_15-20250222-0ubuntu1_armhf.deb ... 274s Unpacking libgfortran5:armhf (15-20250222-0ubuntu1) ... 274s Selecting previously unselected package liblapack3:armhf. 274s Preparing to unpack .../03-liblapack3_3.12.1-2_armhf.deb ... 274s Unpacking liblapack3:armhf (3.12.1-2) ... 274s Selecting previously unselected package python3-numpy. 274s Preparing to unpack .../04-python3-numpy_1%3a2.2.3+ds-5_armhf.deb ... 274s Unpacking python3-numpy (1:2.2.3+ds-5) ... 274s Selecting previously unselected package libaec0:armhf. 274s Preparing to unpack .../05-libaec0_1.1.3-1_armhf.deb ... 274s Unpacking libaec0:armhf (1.1.3-1) ... 274s Selecting previously unselected package libsz2:armhf. 274s Preparing to unpack .../06-libsz2_1.1.3-1_armhf.deb ... 274s Unpacking libsz2:armhf (1.1.3-1) ... 274s Selecting previously unselected package libhdf5-310:armhf. 274s Preparing to unpack .../07-libhdf5-310_1.14.5+repack-3_armhf.deb ... 274s Unpacking libhdf5-310:armhf (1.14.5+repack-3) ... 274s Selecting previously unselected package libhdf5-hl-310:armhf. 274s Preparing to unpack .../08-libhdf5-hl-310_1.14.5+repack-3_armhf.deb ... 274s Unpacking libhdf5-hl-310:armhf (1.14.5+repack-3) ... 274s Selecting previously unselected package libjs-jquery. 274s Preparing to unpack .../09-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 274s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 274s Selecting previously unselected package libjs-underscore. 274s Preparing to unpack .../10-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 274s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 274s Selecting previously unselected package libjs-sphinxdoc. 274s Preparing to unpack .../11-libjs-sphinxdoc_8.1.3-4_all.deb ... 274s Unpacking libjs-sphinxdoc (8.1.3-4) ... 274s Selecting previously unselected package liblbfgsb0:armhf. 274s Preparing to unpack .../12-liblbfgsb0_3.0+dfsg.4-1build1_armhf.deb ... 274s Unpacking liblbfgsb0:armhf (3.0+dfsg.4-1build1) ... 274s Selecting previously unselected package liblzf1:armhf. 274s Preparing to unpack .../13-liblzf1_3.6-4_armhf.deb ... 274s Unpacking liblzf1:armhf (3.6-4) ... 274s Selecting previously unselected package python-biom-format-doc. 274s Preparing to unpack .../14-python-biom-format-doc_2.1.16-1build3_all.deb ... 274s Unpacking python-biom-format-doc (2.1.16-1build3) ... 274s Selecting previously unselected package python3-h5py-serial. 274s Preparing to unpack .../15-python3-h5py-serial_3.13.0-1_armhf.deb ... 274s Unpacking python3-h5py-serial (3.13.0-1) ... 274s Selecting previously unselected package python3-h5py. 274s Preparing to unpack .../16-python3-h5py_3.13.0-1_all.deb ... 274s Unpacking python3-h5py (3.13.0-1) ... 274s Selecting previously unselected package python3-click. 274s Preparing to unpack .../17-python3-click_8.2.0+0.really.8.1.8-1_all.deb ... 274s Unpacking python3-click (8.2.0+0.really.8.1.8-1) ... 274s Selecting previously unselected package python3-pytz. 274s Preparing to unpack .../18-python3-pytz_2025.1-3_all.deb ... 274s Unpacking python3-pytz (2025.1-3) ... 275s Selecting previously unselected package python3-tz. 275s Preparing to unpack .../19-python3-tz_2025.1-3_all.deb ... 275s Unpacking python3-tz (2025.1-3) ... 275s Selecting previously unselected package python3-pandas-lib:armhf. 275s Preparing to unpack .../20-python3-pandas-lib_2.2.3+dfsg-8build1_armhf.deb ... 275s Unpacking python3-pandas-lib:armhf (2.2.3+dfsg-8build1) ... 275s Selecting previously unselected package python3-pandas. 275s Preparing to unpack .../21-python3-pandas_2.2.3+dfsg-8build1_all.deb ... 275s Unpacking python3-pandas (2.2.3+dfsg-8build1) ... 275s Selecting previously unselected package python3-decorator. 275s Preparing to unpack .../22-python3-decorator_5.1.1-5_all.deb ... 275s Unpacking python3-decorator (5.1.1-5) ... 275s Selecting previously unselected package python3-scipy. 275s Preparing to unpack .../23-python3-scipy_1.14.1-4ubuntu2_armhf.deb ... 275s Unpacking python3-scipy (1.14.1-4ubuntu2) ... 276s Selecting previously unselected package python3-biom-format. 276s Preparing to unpack .../24-python3-biom-format_2.1.16-1build3_armhf.deb ... 276s Unpacking python3-biom-format (2.1.16-1build3) ... 276s Setting up python3-pytz (2025.1-3) ... 276s Setting up python3-click (8.2.0+0.really.8.1.8-1) ... 276s Setting up libaec0:armhf (1.1.3-1) ... 276s Setting up python3-tz (2025.1-3) ... 276s Setting up python3-decorator (5.1.1-5) ... 276s Setting up libblas3:armhf (3.12.1-2) ... 276s update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode 276s Setting up liblzf1:armhf (3.6-4) ... 276s Setting up python3-numpy-dev:armhf (1:2.2.3+ds-5) ... 276s Setting up libgfortran5:armhf (15-20250222-0ubuntu1) ... 276s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 276s Setting up libsz2:armhf (1.1.3-1) ... 276s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 276s Setting up liblapack3:armhf (3.12.1-2) ... 276s update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode 276s Setting up python3-numpy (1:2.2.3+ds-5) ... 278s Setting up libjs-sphinxdoc (8.1.3-4) ... 278s Setting up libhdf5-310:armhf (1.14.5+repack-3) ... 278s Setting up liblbfgsb0:armhf (3.0+dfsg.4-1build1) ... 278s Setting up libhdf5-hl-310:armhf (1.14.5+repack-3) ... 278s Setting up python3-scipy (1.14.1-4ubuntu2) ... 282s Setting up python3-pandas-lib:armhf (2.2.3+dfsg-8build1) ... 282s Setting up python3-h5py-serial (3.13.0-1) ... 282s Setting up python-biom-format-doc (2.1.16-1build3) ... 282s Setting up python3-pandas (2.2.3+dfsg-8build1) ... 287s Setting up python3-h5py (3.13.0-1) ... 287s Setting up python3-biom-format (2.1.16-1build3) ... 288s Processing triggers for man-db (2.13.0-1) ... 288s Processing triggers for libc-bin (2.41-1ubuntu2) ... 298s autopkgtest [15:43:51]: test run-unit-test: [----------------------- 301s 301s System information 301s ================== 301s Platform: linux 301s Python version: 3.13.2 (main, Mar 13 2025, 14:29:07) [GCC 14.2.0] 301s Python executable: /usr/bin/python3 301s 301s Dependency versions 301s =================== 301s click version: 8.1.8 301s NumPy version: 2.2.3 301s SciPy version: 1.14.1 301s h5py version: 3.13.0 301s 301s biom-format package information 301s =============================== 301s biom-format version: 2.1.16 301s 302s 302s The input file is a valid BIOM-formatted file. 303s 303s The input file is a valid BIOM-formatted file. 304s 304s The input file is a valid BIOM-formatted file. 305s 305s The input file is a valid BIOM-formatted file. 307s + table=examples/min_sparse_otu_table_hdf5.biom 307s + obsmd=examples/obs_md.txt 307s + [ ! -f examples/min_sparse_otu_table_hdf5.biom ] 307s + biom show-install-info 308s 308s System information 308s ================== 308s Platform: linux 308s Python version: 3.13.2 (main, Mar 13 2025, 14:29:07) [GCC 14.2.0] 308s Python executable: /usr/bin/python3 308s 308s Dependency versions 308s =================== 308s click version: 8.1.8 308s NumPy version: 2.2.3 308s SciPy version: 1.14.1 308s h5py version: 3.13.0 308s 308s biom-format package information 308s =============================== 308s biom-format version: 2.1.16 308s 308s + biom validate-table -i examples/min_sparse_otu_table_hdf5.biom 309s 309s The input file is a valid BIOM-formatted file. 309s + biom add-metadata -i examples/min_sparse_otu_table_hdf5.biom -o test_add_metadata.biom --observation-metadata-fp examples/obs_md.txt --sc-separated taxonomy 310s + biom convert -i examples/min_sparse_otu_table_hdf5.biom -o test_json.biom --to-json 311s + biom convert -i examples/min_sparse_otu_table_hdf5.biom -o test_tsv.txt --to-tsv 312s + biom validate-table -i test_json.biom 313s 313s The input file is a valid BIOM-formatted file. 313s + biom convert -i test_json.biom -o test_hdf5.biom --to-hdf5 314s + biom validate-table -i test_hdf5.biom 315s 315s The input file is a valid BIOM-formatted file. 315s + biom convert -i test_json.biom -o test_tsv.txt --to-tsv 316s + biom convert -i test_tsv.txt -o test_hdf5.biom --to-hdf5 --table-type OTU table 317s + biom validate-table -i test_hdf5.biom 318s 318s The input file is a valid BIOM-formatted file. 319s + biom convert -i test_tsv.txt -o test_json.biom --to-json --table-type OTU table 320s + biom validate-table -i test_json.biom 320s 320s The input file is a valid BIOM-formatted file. 321s + biom head -i examples/min_sparse_otu_table_hdf5.biom 321s # Constructed from biom file 321s #OTU ID Sample1 Sample2 Sample3 Sample4 Sample5 321s GG_OTU_1 0.0 0.0 1.0 0.0 0.0 321s GG_OTU_2 5.0 1.0 0.0 2.0 3.0 321s GG_OTU_3 0.0 0.0 1.0 4.0 0.0 321s GG_OTU_4 2.0 1.0 1.0 0.0 0.0 321s GG_OTU_5 0.0 1.0 1.0 0.0 0.0 321s + biom table-ids -i examples/min_sparse_otu_table_hdf5.biom 322s Sample1 322s Sample2 322s Sample3 322s Sample4 322s Sample5 322s Sample6 322s + biom normalize-table -i examples/min_sparse_otu_table_hdf5.biom -o test_norm.biom -p 325s + cat 325s + biom subset-table -i examples/min_sparse_otu_table_hdf5.biom -o test_subset.biom -a observation -s ids.txt 325s + biom summarize-table -i examples/min_sparse_otu_table_hdf5.biom 325s Num samples: 6 325s Num observations: 5 325s Total count: 27 325s Table density (fraction of non-zero values): 0.500 325s 325s Counts/sample summary: 325s Min: 3.000 325s Max: 7.000 325s Median: 4.000 325s Mean: 4.500 325s Std. dev.: 1.500 325s Sample Metadata Categories: None provided 325s Observation Metadata Categories: None provided 325s 325s Counts/sample detail: 325s Sample2: 3.000 325s Sample5: 3.000 325s Sample3: 4.000 325s Sample6: 4.000 325s Sample4: 6.000 325s Sample1: 7.000 325s + cat 325s + biom from-uc -i uctest -o test_uc.biom 326s + echo If this message was shown, then all commands executed without failure 326s If this message was shown, then all commands executed without failure 327s autopkgtest [15:44:20]: test run-unit-test: -----------------------] 331s run-unit-test PASS 331s autopkgtest [15:44:24]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 335s autopkgtest [15:44:28]: test autodep8-python3: preparing testbed 357s autopkgtest [15:44:50]: testbed dpkg architecture: armhf 359s autopkgtest [15:44:52]: testbed apt version: 2.9.33 363s autopkgtest [15:44:56]: @@@@@@@@@@@@@@@@@@@@ test bed setup 365s autopkgtest [15:44:58]: testbed release detected to be: plucky 373s autopkgtest [15:45:06]: updating testbed package index (apt update) 375s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 375s Get:2 http://ftpmaster.internal/ubuntu plucky InRelease [257 kB] 375s Get:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease [126 kB] 375s Get:4 http://ftpmaster.internal/ubuntu plucky-security InRelease [126 kB] 376s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [379 kB] 376s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB] 376s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.7 kB] 376s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf Packages [114 kB] 376s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf c-n-f Metadata [1832 B] 376s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted armhf c-n-f Metadata [116 B] 376s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf Packages [312 kB] 377s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf c-n-f Metadata [11.1 kB] 377s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf Packages [3472 B] 377s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf c-n-f Metadata [240 B] 377s Get:15 http://ftpmaster.internal/ubuntu plucky/main Sources [1394 kB] 378s Get:16 http://ftpmaster.internal/ubuntu plucky/universe Sources [21.0 MB] 403s Get:17 http://ftpmaster.internal/ubuntu plucky/multiverse Sources [299 kB] 403s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf Packages [1378 kB] 405s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf c-n-f Metadata [29.4 kB] 405s Get:20 http://ftpmaster.internal/ubuntu plucky/restricted armhf c-n-f Metadata [108 B] 405s Get:21 http://ftpmaster.internal/ubuntu plucky/universe armhf Packages [15.1 MB] 425s Get:22 http://ftpmaster.internal/ubuntu plucky/multiverse armhf Packages [172 kB] 427s Fetched 41.0 MB in 53s (778 kB/s) 429s Reading package lists... 434s autopkgtest [15:46:07]: upgrading testbed (apt dist-upgrade and autopurge) 436s Reading package lists... 436s Building dependency tree... 436s Reading state information... 437s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 437s Starting 2 pkgProblemResolver with broken count: 0 437s Done 438s Entering ResolveByKeep 438s 439s Calculating upgrade... 439s The following packages will be upgraded: 439s libc-bin libc6 locales pinentry-curses python3-jinja2 sos strace 439s 7 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 439s Need to get 8683 kB of archives. 439s After this operation, 23.6 kB of additional disk space will be used. 439s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc6 armhf 2.41-1ubuntu2 [2932 kB] 443s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc-bin armhf 2.41-1ubuntu2 [545 kB] 443s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf locales all 2.41-1ubuntu2 [4246 kB] 449s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf strace armhf 6.13+ds-1ubuntu1 [445 kB] 449s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf pinentry-curses armhf 1.3.1-2ubuntu3 [40.6 kB] 450s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 450s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf sos all 4.9.0-5 [365 kB] 451s Preconfiguring packages ... 451s Fetched 8683 kB in 11s (768 kB/s) 451s (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 ... 64655 files and directories currently installed.) 451s Preparing to unpack .../libc6_2.41-1ubuntu2_armhf.deb ... 451s Unpacking libc6:armhf (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 451s Setting up libc6:armhf (2.41-1ubuntu2) ... 452s (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 ... 64655 files and directories currently installed.) 452s Preparing to unpack .../libc-bin_2.41-1ubuntu2_armhf.deb ... 452s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 452s Setting up libc-bin (2.41-1ubuntu2) ... 452s (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 ... 64655 files and directories currently installed.) 452s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 452s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 452s Preparing to unpack .../strace_6.13+ds-1ubuntu1_armhf.deb ... 452s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 452s Preparing to unpack .../pinentry-curses_1.3.1-2ubuntu3_armhf.deb ... 452s Unpacking pinentry-curses (1.3.1-2ubuntu3) over (1.3.1-2ubuntu2) ... 452s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ... 452s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 453s Preparing to unpack .../archives/sos_4.9.0-5_all.deb ... 453s Unpacking sos (4.9.0-5) over (4.9.0-4) ... 453s Setting up sos (4.9.0-5) ... 453s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 454s Setting up locales (2.41-1ubuntu2) ... 454s Generating locales (this might take a while)... 456s en_US.UTF-8... done 456s Generation complete. 456s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 456s Setting up strace (6.13+ds-1ubuntu1) ... 456s Processing triggers for man-db (2.13.0-1) ... 457s Processing triggers for systemd (257.3-1ubuntu3) ... 460s Reading package lists... 461s Building dependency tree... 461s Reading state information... 461s Starting pkgProblemResolver with broken count: 0 461s Starting 2 pkgProblemResolver with broken count: 0 461s Done 461s Solving dependencies... 462s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 464s autopkgtest [15:46:37]: rebooting testbed after setup commands that affected boot 541s Reading package lists... 541s Building dependency tree... 541s Reading state information... 542s Starting pkgProblemResolver with broken count: 0 542s Starting 2 pkgProblemResolver with broken count: 0 542s Done 543s The following NEW packages will be installed: 543s libaec0 libblas3 libgfortran5 libhdf5-310 libhdf5-hl-310 liblapack3 543s liblbfgsb0 liblzf1 libsz2 python3-all python3-biom-format python3-click 543s python3-decorator python3-h5py python3-h5py-serial python3-numpy 543s python3-numpy-dev python3-pandas python3-pandas-lib python3-pytz 543s python3-scipy python3-tz 543s 0 upgraded, 22 newly installed, 0 to remove and 0 not upgraded. 543s Need to get 34.2 MB of archives. 543s After this operation, 135 MB of additional disk space will be used. 543s Get:1 http://ftpmaster.internal/ubuntu plucky/main armhf python3-numpy-dev armhf 1:2.2.3+ds-5 [141 kB] 543s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf libblas3 armhf 3.12.1-2 [132 kB] 543s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf libgfortran5 armhf 15-20250222-0ubuntu1 [330 kB] 544s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf liblapack3 armhf 3.12.1-2 [2091 kB] 547s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf python3-numpy armhf 1:2.2.3+ds-5 [3725 kB] 554s Get:6 http://ftpmaster.internal/ubuntu plucky/universe armhf libaec0 armhf 1.1.3-1 [20.8 kB] 554s Get:7 http://ftpmaster.internal/ubuntu plucky/universe armhf libsz2 armhf 1.1.3-1 [5302 B] 554s Get:8 http://ftpmaster.internal/ubuntu plucky/universe armhf libhdf5-310 armhf 1.14.5+repack-3 [1410 kB] 556s Get:9 http://ftpmaster.internal/ubuntu plucky/universe armhf libhdf5-hl-310 armhf 1.14.5+repack-3 [58.8 kB] 556s Get:10 http://ftpmaster.internal/ubuntu plucky/universe armhf liblbfgsb0 armhf 3.0+dfsg.4-1build1 [27.4 kB] 556s Get:11 http://ftpmaster.internal/ubuntu plucky/universe armhf liblzf1 armhf 3.6-4 [6554 B] 556s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf python3-all armhf 3.13.2-2 [886 B] 556s Get:13 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-h5py-serial armhf 3.13.0-1 [1113 kB] 558s Get:14 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-h5py all 3.13.0-1 [7978 B] 558s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf python3-click all 8.2.0+0.really.8.1.8-1 [80.0 kB] 558s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf python3-pytz all 2025.1-3 [162 kB] 558s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf python3-tz all 2025.1-3 [1866 B] 558s Get:18 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-pandas-lib armhf 2.2.3+dfsg-8build1 [4877 kB] 566s Get:19 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-pandas all 2.2.3+dfsg-8build1 [3112 kB] 571s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf python3-decorator all 5.1.1-5 [10.1 kB] 571s Get:21 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-scipy armhf 1.14.1-4ubuntu2 [16.7 MB] 598s Get:22 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-biom-format armhf 2.1.16-1build3 [140 kB] 599s Fetched 34.2 MB in 56s (615 kB/s) 599s Selecting previously unselected package python3-numpy-dev:armhf. 599s (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 ... 64655 files and directories currently installed.) 599s Preparing to unpack .../00-python3-numpy-dev_1%3a2.2.3+ds-5_armhf.deb ... 599s Unpacking python3-numpy-dev:armhf (1:2.2.3+ds-5) ... 599s Selecting previously unselected package libblas3:armhf. 599s Preparing to unpack .../01-libblas3_3.12.1-2_armhf.deb ... 599s Unpacking libblas3:armhf (3.12.1-2) ... 599s Selecting previously unselected package libgfortran5:armhf. 599s Preparing to unpack .../02-libgfortran5_15-20250222-0ubuntu1_armhf.deb ... 599s Unpacking libgfortran5:armhf (15-20250222-0ubuntu1) ... 599s Selecting previously unselected package liblapack3:armhf. 599s Preparing to unpack .../03-liblapack3_3.12.1-2_armhf.deb ... 599s Unpacking liblapack3:armhf (3.12.1-2) ... 599s Selecting previously unselected package python3-numpy. 599s Preparing to unpack .../04-python3-numpy_1%3a2.2.3+ds-5_armhf.deb ... 599s Unpacking python3-numpy (1:2.2.3+ds-5) ... 599s Selecting previously unselected package libaec0:armhf. 599s Preparing to unpack .../05-libaec0_1.1.3-1_armhf.deb ... 599s Unpacking libaec0:armhf (1.1.3-1) ... 599s Selecting previously unselected package libsz2:armhf. 599s Preparing to unpack .../06-libsz2_1.1.3-1_armhf.deb ... 599s Unpacking libsz2:armhf (1.1.3-1) ... 599s Selecting previously unselected package libhdf5-310:armhf. 599s Preparing to unpack .../07-libhdf5-310_1.14.5+repack-3_armhf.deb ... 599s Unpacking libhdf5-310:armhf (1.14.5+repack-3) ... 599s Selecting previously unselected package libhdf5-hl-310:armhf. 599s Preparing to unpack .../08-libhdf5-hl-310_1.14.5+repack-3_armhf.deb ... 599s Unpacking libhdf5-hl-310:armhf (1.14.5+repack-3) ... 599s Selecting previously unselected package liblbfgsb0:armhf. 599s Preparing to unpack .../09-liblbfgsb0_3.0+dfsg.4-1build1_armhf.deb ... 599s Unpacking liblbfgsb0:armhf (3.0+dfsg.4-1build1) ... 599s Selecting previously unselected package liblzf1:armhf. 599s Preparing to unpack .../10-liblzf1_3.6-4_armhf.deb ... 599s Unpacking liblzf1:armhf (3.6-4) ... 599s Selecting previously unselected package python3-all. 599s Preparing to unpack .../11-python3-all_3.13.2-2_armhf.deb ... 599s Unpacking python3-all (3.13.2-2) ... 599s Selecting previously unselected package python3-h5py-serial. 599s Preparing to unpack .../12-python3-h5py-serial_3.13.0-1_armhf.deb ... 599s Unpacking python3-h5py-serial (3.13.0-1) ... 599s Selecting previously unselected package python3-h5py. 599s Preparing to unpack .../13-python3-h5py_3.13.0-1_all.deb ... 599s Unpacking python3-h5py (3.13.0-1) ... 599s Selecting previously unselected package python3-click. 599s Preparing to unpack .../14-python3-click_8.2.0+0.really.8.1.8-1_all.deb ... 599s Unpacking python3-click (8.2.0+0.really.8.1.8-1) ... 599s Selecting previously unselected package python3-pytz. 599s Preparing to unpack .../15-python3-pytz_2025.1-3_all.deb ... 599s Unpacking python3-pytz (2025.1-3) ... 599s Selecting previously unselected package python3-tz. 599s Preparing to unpack .../16-python3-tz_2025.1-3_all.deb ... 599s Unpacking python3-tz (2025.1-3) ... 599s Selecting previously unselected package python3-pandas-lib:armhf. 599s Preparing to unpack .../17-python3-pandas-lib_2.2.3+dfsg-8build1_armhf.deb ... 599s Unpacking python3-pandas-lib:armhf (2.2.3+dfsg-8build1) ... 600s Selecting previously unselected package python3-pandas. 600s Preparing to unpack .../18-python3-pandas_2.2.3+dfsg-8build1_all.deb ... 600s Unpacking python3-pandas (2.2.3+dfsg-8build1) ... 600s Selecting previously unselected package python3-decorator. 600s Preparing to unpack .../19-python3-decorator_5.1.1-5_all.deb ... 600s Unpacking python3-decorator (5.1.1-5) ... 600s Selecting previously unselected package python3-scipy. 600s Preparing to unpack .../20-python3-scipy_1.14.1-4ubuntu2_armhf.deb ... 600s Unpacking python3-scipy (1.14.1-4ubuntu2) ... 600s Selecting previously unselected package python3-biom-format. 600s Preparing to unpack .../21-python3-biom-format_2.1.16-1build3_armhf.deb ... 600s Unpacking python3-biom-format (2.1.16-1build3) ... 601s Setting up python3-all (3.13.2-2) ... 601s Setting up python3-pytz (2025.1-3) ... 601s Setting up python3-click (8.2.0+0.really.8.1.8-1) ... 601s Setting up libaec0:armhf (1.1.3-1) ... 601s Setting up python3-tz (2025.1-3) ... 601s Setting up python3-decorator (5.1.1-5) ... 601s Setting up libblas3:armhf (3.12.1-2) ... 601s update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode 601s Setting up liblzf1:armhf (3.6-4) ... 601s Setting up python3-numpy-dev:armhf (1:2.2.3+ds-5) ... 601s Setting up libgfortran5:armhf (15-20250222-0ubuntu1) ... 601s Setting up libsz2:armhf (1.1.3-1) ... 601s Setting up liblapack3:armhf (3.12.1-2) ... 601s update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode 601s Setting up python3-numpy (1:2.2.3+ds-5) ... 603s Setting up libhdf5-310:armhf (1.14.5+repack-3) ... 603s Setting up liblbfgsb0:armhf (3.0+dfsg.4-1build1) ... 603s Setting up libhdf5-hl-310:armhf (1.14.5+repack-3) ... 603s Setting up python3-scipy (1.14.1-4ubuntu2) ... 607s Setting up python3-pandas-lib:armhf (2.2.3+dfsg-8build1) ... 607s Setting up python3-h5py-serial (3.13.0-1) ... 607s Setting up python3-pandas (2.2.3+dfsg-8build1) ... 612s Setting up python3-h5py (3.13.0-1) ... 612s Setting up python3-biom-format (2.1.16-1build3) ... 612s Processing triggers for man-db (2.13.0-1) ... 613s Processing triggers for libc-bin (2.41-1ubuntu2) ... 627s autopkgtest [15:49:20]: test autodep8-python3: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import biom; print(biom)" ; done 627s autopkgtest [15:49:20]: test autodep8-python3: [----------------------- 629s Testing with python3.13: 630s 631s autopkgtest [15:49:24]: test autodep8-python3: -----------------------] 635s autodep8-python3 PASS (superficial) 635s autopkgtest [15:49:28]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 638s autopkgtest [15:49:31]: @@@@@@@@@@@@@@@@@@@@ summary 638s run-unit-test PASS 638s autodep8-python3 PASS (superficial)