0s autopkgtest [17:21:05]: starting date and time: 2025-02-19 17:21:05+0000 0s autopkgtest [17:21:05]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [17:21:05]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work._rcw4t64/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:sphinx --apt-upgrade python-biom-format --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=sphinx/8.1.3-5 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-ppc64el --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-ppc64el-8.secgroup --name adt-plucky-ppc64el-python-biom-format-20250219-172105-juju-7f2275-prod-proposed-migration-environment-15-c2aef45c-b027-4581-91a9-23c172fb0a72 --image adt/ubuntu-plucky-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --net-id=net_prod-proposed-migration-ppc64el -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_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'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 93s autopkgtest [17:22:38]: testbed dpkg architecture: ppc64el 94s autopkgtest [17:22:39]: testbed apt version: 2.9.29 94s autopkgtest [17:22:39]: @@@@@@@@@@@@@@@@@@@@ test bed setup 94s autopkgtest [17:22:39]: testbed release detected to be: None 95s autopkgtest [17:22:40]: updating testbed package index (apt update) 95s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [110 kB] 96s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 96s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 96s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 96s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [73.1 kB] 96s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [14.5 kB] 96s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [3120 B] 96s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [732 kB] 96s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el Packages [96.5 kB] 96s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted ppc64el Packages [760 B] 96s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe ppc64el Packages [667 kB] 96s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse ppc64el Packages [5760 B] 96s Fetched 1703 kB in 1s (1545 kB/s) 97s Reading package lists... 98s + lsb_release --codename --short 98s + RELEASE=plucky 98s + cat 98s + [ plucky != trusty ] 98s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y --allow-downgrades -o Dpkg::Options::=--force-confnew dist-upgrade 98s Reading package lists... 98s Building dependency tree... 98s Reading state information... 98s Calculating upgrade... 99s The following NEW packages will be installed: 99s libapt-pkg7.0 99s The following packages will be upgraded: 99s apt apt-utils dhcpcd-base iproute2 libgpgme11t64 liblsof0 libp11-kit0 lsof 99s rsyslog sysvinit-utils 99s 10 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 99s Need to get 5997 kB of archives. 99s After this operation, 3932 kB of additional disk space will be used. 99s Get:1 http://ftpmaster.internal/ubuntu plucky/main ppc64el sysvinit-utils ppc64el 3.14-1ubuntu1 [37.0 kB] 99s Get:2 http://ftpmaster.internal/ubuntu plucky/main ppc64el libapt-pkg7.0 ppc64el 2.9.30 [1152 kB] 99s Get:3 http://ftpmaster.internal/ubuntu plucky/main ppc64el apt ppc64el 2.9.30 [1439 kB] 99s Get:4 http://ftpmaster.internal/ubuntu plucky/main ppc64el apt-utils ppc64el 2.9.30 [228 kB] 99s Get:5 http://ftpmaster.internal/ubuntu plucky/main ppc64el dhcpcd-base ppc64el 1:10.1.0-7 [280 kB] 99s Get:6 http://ftpmaster.internal/ubuntu plucky/main ppc64el iproute2 ppc64el 6.13.0-1ubuntu1 [1419 kB] 99s Get:7 http://ftpmaster.internal/ubuntu plucky/main ppc64el libp11-kit0 ppc64el 0.25.5-2ubuntu3 [309 kB] 99s Get:8 http://ftpmaster.internal/ubuntu plucky/main ppc64el rsyslog ppc64el 8.2412.0-2ubuntu1 [632 kB] 100s Get:9 http://ftpmaster.internal/ubuntu plucky/main ppc64el lsof ppc64el 4.99.4+dfsg-1 [255 kB] 100s Get:10 http://ftpmaster.internal/ubuntu plucky/main ppc64el liblsof0 ppc64el 4.99.4+dfsg-1 [68.4 kB] 100s Get:11 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgpgme11t64 ppc64el 1.24.2-1ubuntu1 [177 kB] 100s Preconfiguring packages ... 100s Fetched 5997 kB in 1s (6671 kB/s) 101s (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 ... 106322 files and directories currently installed.) 101s Preparing to unpack .../sysvinit-utils_3.14-1ubuntu1_ppc64el.deb ... 101s Unpacking sysvinit-utils (3.14-1ubuntu1) over (3.08-6ubuntu3) ... 101s Setting up sysvinit-utils (3.14-1ubuntu1) ... 101s Selecting previously unselected package libapt-pkg7.0:ppc64el. 101s (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 ... 106322 files and directories currently installed.) 101s Preparing to unpack .../libapt-pkg7.0_2.9.30_ppc64el.deb ... 101s Unpacking libapt-pkg7.0:ppc64el (2.9.30) ... 101s Setting up libapt-pkg7.0:ppc64el (2.9.30) ... 101s (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 ... 106371 files and directories currently installed.) 101s Preparing to unpack .../apt_2.9.30_ppc64el.deb ... 101s Unpacking apt (2.9.30) over (2.9.29) ... 101s Setting up apt (2.9.30) ... 102s (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 ... 106371 files and directories currently installed.) 102s Preparing to unpack .../0-apt-utils_2.9.30_ppc64el.deb ... 102s Unpacking apt-utils (2.9.30) over (2.9.29) ... 102s Preparing to unpack .../1-dhcpcd-base_1%3a10.1.0-7_ppc64el.deb ... 102s Unpacking dhcpcd-base (1:10.1.0-7) over (1:10.1.0-6) ... 102s Preparing to unpack .../2-iproute2_6.13.0-1ubuntu1_ppc64el.deb ... 102s Unpacking iproute2 (6.13.0-1ubuntu1) over (6.10.0-2ubuntu1) ... 103s Preparing to unpack .../3-libp11-kit0_0.25.5-2ubuntu3_ppc64el.deb ... 103s Unpacking libp11-kit0:ppc64el (0.25.5-2ubuntu3) over (0.25.5-2ubuntu2) ... 103s Preparing to unpack .../4-rsyslog_8.2412.0-2ubuntu1_ppc64el.deb ... 103s Unpacking rsyslog (8.2412.0-2ubuntu1) over (8.2412.0-1ubuntu1) ... 103s Preparing to unpack .../5-lsof_4.99.4+dfsg-1_ppc64el.deb ... 103s Unpacking lsof (4.99.4+dfsg-1) over (4.99.3+dfsg-2) ... 103s Preparing to unpack .../6-liblsof0_4.99.4+dfsg-1_ppc64el.deb ... 103s Unpacking liblsof0 (4.99.4+dfsg-1) over (4.99.3+dfsg-2) ... 103s Preparing to unpack .../7-libgpgme11t64_1.24.2-1ubuntu1_ppc64el.deb ... 103s Unpacking libgpgme11t64:ppc64el (1.24.2-1ubuntu1) over (1.24.1-4ubuntu1) ... 103s Setting up apt-utils (2.9.30) ... 103s Setting up liblsof0 (4.99.4+dfsg-1) ... 103s Setting up iproute2 (6.13.0-1ubuntu1) ... 104s Setting up rsyslog (8.2412.0-2ubuntu1) ... 104s info: The user `syslog' is already a member of `adm'. 105s Setting up libp11-kit0:ppc64el (0.25.5-2ubuntu3) ... 105s Setting up dhcpcd-base (1:10.1.0-7) ... 105s Setting up lsof (4.99.4+dfsg-1) ... 105s Setting up libgpgme11t64:ppc64el (1.24.2-1ubuntu1) ... 105s Processing triggers for man-db (2.13.0-1) ... 108s Processing triggers for libc-bin (2.40-4ubuntu1) ... 108s + rm /etc/apt/preferences.d/force-downgrade-to-release.pref 108s + /usr/lib/apt/apt-helper analyze-pattern ?true 108s + + sed s/\./\\./g 108s uname -r 108s + running_kernel_pattern=^linux-.*6\.12\.0-15-generic.* 108s + apt list ?obsolete 108s + tail -n+2 108s + grep -v ^linux-.*6\.12\.0-15-generic.*+ cut -d/ -f1 108s 110s + true 110s + obsolete_pkgs= 110s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -yReading package lists... 110s Building dependency tree... purge --autoremove 110s 110s Reading state information... 111s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 111s + grep -q trusty /etc/lsb-release 111s + [ ! -d /usr/share/doc/unattended-upgrades ] 111s + [ ! -d /usr/share/doc/lxd ] 111s + [ ! -d /usr/share/doc/lxd-client ] 111s + [ ! -d /usr/share/doc/snapd ] 111s + type iptables 111s + cat 111s + chmod 755 /etc/rc.local 111s + . /etc/rc.local 111s + iptables -w -t mangle -A FORWARD -p tcp --tcp-flags SYN,RST SYN -j TCPMSS --clamp-mss-to-pmtu 111s + iptables -A OUTPUT -d 10.255.255.1/32 -p tcp -j DROP 111s + iptables -A OUTPUT -d 10.255.255.2/32 -p tcp -j DROP 111s + uname -m 111s + [ ppc64le = ppc64le ] 111s + systemctl is-active keyboard-setup.service 111s + [ active = failed ] 111s + [ -d /run/systemd/system ] 111s + systemd-detect-virt --quiet --vm 111s + mkdir -p /etc/systemd/system/systemd-random-seed.service.d/ 111s + cat 111s + grep -q lz4 /etc/initramfs-tools/initramfs.conf 111s + echo COMPRESS=lz4 111s autopkgtest [17:22:56]: upgrading testbed (apt dist-upgrade and autopurge) 111s Reading package lists... 111s Building dependency tree... 111s Reading state information... 111s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 112s Starting 2 pkgProblemResolver with broken count: 0 112s Done 112s Entering ResolveByKeep 112s 113s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 113s Reading package lists... 113s Building dependency tree... 113s Reading state information... 113s Starting pkgProblemResolver with broken count: 0 113s Starting 2 pkgProblemResolver with broken count: 0 113s Done 114s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 114s autopkgtest [17:22:59]: rebooting testbed after setup commands that affected boot 148s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 167s autopkgtest [17:23:52]: testbed running kernel: Linux 6.12.0-15-generic #15-Ubuntu SMP Tue Feb 4 16:32:08 UTC 2025 170s autopkgtest [17:23:55]: @@@@@@@@@@@@@@@@@@@@ apt-source python-biom-format 175s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-biom-format 2.1.16-1build2 (dsc) [2498 B] 175s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-biom-format 2.1.16-1build2 (tar) [11.9 MB] 175s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-biom-format 2.1.16-1build2 (diff) [11.7 kB] 175s gpgv: Signature made Wed Jan 29 22:35:10 2025 UTC 175s gpgv: using RSA key 25E3FF2D7F469DBE7D0D4E50AFCFEC8E669CE1C2 175s gpgv: Can't check signature: No public key 175s dpkg-source: warning: cannot verify inline signature for ./python-biom-format_2.1.16-1build2.dsc: no acceptable signature found 175s autopkgtest [17:23:59]: testing package python-biom-format version 2.1.16-1build2 175s autopkgtest [17:24:00]: build not needed 178s autopkgtest [17:24:03]: test run-unit-test: preparing testbed 178s Reading package lists... 179s Building dependency tree... 179s Reading state information... 179s Starting pkgProblemResolver with broken count: 0 179s Starting 2 pkgProblemResolver with broken count: 0 179s Done 179s The following NEW packages will be installed: 179s libaec0 libblas3 libgfortran5 libhdf5-310 libhdf5-hl-310 libjs-jquery 179s libjs-sphinxdoc libjs-underscore liblapack3 liblbfgsb0 liblzf1 libsz2 179s python-biom-format-doc python3-biom-format python3-click python3-dateutil 179s python3-decorator python3-h5py python3-h5py-serial python3-numpy 179s python3-pandas python3-pandas-lib python3-pytz python3-scipy python3-tz 179s 0 upgraded, 25 newly installed, 0 to remove and 0 not upgraded. 179s Need to get 46.3 MB of archives. 179s After this operation, 288 MB of additional disk space will be used. 179s Get:1 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libaec0 ppc64el 1.1.3-1 [30.1 kB] 180s Get:2 http://ftpmaster.internal/ubuntu plucky/main ppc64el libblas3 ppc64el 3.12.1-2 [239 kB] 180s Get:3 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgfortran5 ppc64el 15-20250213-1ubuntu1 [613 kB] 180s Get:4 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libsz2 ppc64el 1.1.3-1 [5566 B] 180s Get:5 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libhdf5-310 ppc64el 1.14.5+repack-3 [1523 kB] 180s Get:6 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libhdf5-hl-310 ppc64el 1.14.5+repack-3 [74.9 kB] 180s Get:7 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 180s Get:8 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 180s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el libjs-sphinxdoc all 8.1.3-5 [31.0 kB] 180s Get:10 http://ftpmaster.internal/ubuntu plucky/main ppc64el liblapack3 ppc64el 3.12.1-2 [2813 kB] 181s Get:11 http://ftpmaster.internal/ubuntu plucky/universe ppc64el liblbfgsb0 ppc64el 3.0+dfsg.4-1build1 [33.0 kB] 181s Get:12 http://ftpmaster.internal/ubuntu plucky/universe ppc64el liblzf1 ppc64el 3.6-4 [7920 B] 181s Get:13 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python-biom-format-doc all 2.1.16-1build2 [57.5 kB] 181s Get:14 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-numpy ppc64el 1:1.26.4+ds-13 [5146 kB] 182s Get:15 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-h5py-serial ppc64el 3.12.1-1 [1603 kB] 182s Get:16 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-h5py all 3.12.1-1 [7970 B] 182s Get:17 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-click all 8.1.8-1 [79.8 kB] 182s Get:18 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-dateutil all 2.9.0-3 [80.2 kB] 183s Get:19 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-pytz all 2025.1-3 [162 kB] 183s Get:20 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-tz all 2025.1-3 [1866 B] 183s Get:21 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-pandas-lib ppc64el 2.2.3+dfsg-8 [7343 kB] 183s Get:22 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-pandas all 2.2.3+dfsg-8 [3112 kB] 184s Get:23 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-decorator all 5.1.1-5 [10.1 kB] 184s Get:24 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-scipy ppc64el 1.14.1-4ubuntu1 [22.7 MB] 185s Get:25 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-biom-format ppc64el 2.1.16-1build2 [183 kB] 185s Fetched 46.3 MB in 5s (8648 kB/s) 185s Selecting previously unselected package libaec0:ppc64el. 185s (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 ... 106372 files and directories currently installed.) 185s Preparing to unpack .../00-libaec0_1.1.3-1_ppc64el.deb ... 185s Unpacking libaec0:ppc64el (1.1.3-1) ... 185s Selecting previously unselected package libblas3:ppc64el. 185s Preparing to unpack .../01-libblas3_3.12.1-2_ppc64el.deb ... 185s Unpacking libblas3:ppc64el (3.12.1-2) ... 185s Selecting previously unselected package libgfortran5:ppc64el. 185s Preparing to unpack .../02-libgfortran5_15-20250213-1ubuntu1_ppc64el.deb ... 185s Unpacking libgfortran5:ppc64el (15-20250213-1ubuntu1) ... 186s Selecting previously unselected package libsz2:ppc64el. 186s Preparing to unpack .../03-libsz2_1.1.3-1_ppc64el.deb ... 186s Unpacking libsz2:ppc64el (1.1.3-1) ... 186s Selecting previously unselected package libhdf5-310:ppc64el. 186s Preparing to unpack .../04-libhdf5-310_1.14.5+repack-3_ppc64el.deb ... 186s Unpacking libhdf5-310:ppc64el (1.14.5+repack-3) ... 186s Selecting previously unselected package libhdf5-hl-310:ppc64el. 186s Preparing to unpack .../05-libhdf5-hl-310_1.14.5+repack-3_ppc64el.deb ... 186s Unpacking libhdf5-hl-310:ppc64el (1.14.5+repack-3) ... 186s Selecting previously unselected package libjs-jquery. 186s Preparing to unpack .../06-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 186s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 186s Selecting previously unselected package libjs-underscore. 186s Preparing to unpack .../07-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 186s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 186s Selecting previously unselected package libjs-sphinxdoc. 186s Preparing to unpack .../08-libjs-sphinxdoc_8.1.3-5_all.deb ... 186s Unpacking libjs-sphinxdoc (8.1.3-5) ... 186s Selecting previously unselected package liblapack3:ppc64el. 186s Preparing to unpack .../09-liblapack3_3.12.1-2_ppc64el.deb ... 186s Unpacking liblapack3:ppc64el (3.12.1-2) ... 186s Selecting previously unselected package liblbfgsb0:ppc64el. 186s Preparing to unpack .../10-liblbfgsb0_3.0+dfsg.4-1build1_ppc64el.deb ... 186s Unpacking liblbfgsb0:ppc64el (3.0+dfsg.4-1build1) ... 186s Selecting previously unselected package liblzf1:ppc64el. 186s Preparing to unpack .../11-liblzf1_3.6-4_ppc64el.deb ... 186s Unpacking liblzf1:ppc64el (3.6-4) ... 186s Selecting previously unselected package python-biom-format-doc. 186s Preparing to unpack .../12-python-biom-format-doc_2.1.16-1build2_all.deb ... 186s Unpacking python-biom-format-doc (2.1.16-1build2) ... 186s Selecting previously unselected package python3-numpy. 186s Preparing to unpack .../13-python3-numpy_1%3a1.26.4+ds-13_ppc64el.deb ... 186s Unpacking python3-numpy (1:1.26.4+ds-13) ... 186s Selecting previously unselected package python3-h5py-serial. 186s Preparing to unpack .../14-python3-h5py-serial_3.12.1-1_ppc64el.deb ... 186s Unpacking python3-h5py-serial (3.12.1-1) ... 186s Selecting previously unselected package python3-h5py. 186s Preparing to unpack .../15-python3-h5py_3.12.1-1_all.deb ... 186s Unpacking python3-h5py (3.12.1-1) ... 186s Selecting previously unselected package python3-click. 186s Preparing to unpack .../16-python3-click_8.1.8-1_all.deb ... 186s Unpacking python3-click (8.1.8-1) ... 186s Selecting previously unselected package python3-dateutil. 186s Preparing to unpack .../17-python3-dateutil_2.9.0-3_all.deb ... 186s Unpacking python3-dateutil (2.9.0-3) ... 186s Selecting previously unselected package python3-pytz. 186s Preparing to unpack .../18-python3-pytz_2025.1-3_all.deb ... 186s Unpacking python3-pytz (2025.1-3) ... 186s Selecting previously unselected package python3-tz. 186s Preparing to unpack .../19-python3-tz_2025.1-3_all.deb ... 186s Unpacking python3-tz (2025.1-3) ... 186s Selecting previously unselected package python3-pandas-lib:ppc64el. 186s Preparing to unpack .../20-python3-pandas-lib_2.2.3+dfsg-8_ppc64el.deb ... 186s Unpacking python3-pandas-lib:ppc64el (2.2.3+dfsg-8) ... 187s Selecting previously unselected package python3-pandas. 187s Preparing to unpack .../21-python3-pandas_2.2.3+dfsg-8_all.deb ... 187s Unpacking python3-pandas (2.2.3+dfsg-8) ... 187s Selecting previously unselected package python3-decorator. 187s Preparing to unpack .../22-python3-decorator_5.1.1-5_all.deb ... 187s Unpacking python3-decorator (5.1.1-5) ... 187s Selecting previously unselected package python3-scipy. 187s Preparing to unpack .../23-python3-scipy_1.14.1-4ubuntu1_ppc64el.deb ... 187s Unpacking python3-scipy (1.14.1-4ubuntu1) ... 188s Selecting previously unselected package python3-biom-format. 188s Preparing to unpack .../24-python3-biom-format_2.1.16-1build2_ppc64el.deb ... 188s Unpacking python3-biom-format (2.1.16-1build2) ... 188s Setting up python3-pytz (2025.1-3) ... 188s Setting up python3-click (8.1.8-1) ... 189s Setting up libaec0:ppc64el (1.1.3-1) ... 189s Setting up python3-tz (2025.1-3) ... 189s Setting up python3-decorator (5.1.1-5) ... 189s Setting up libblas3:ppc64el (3.12.1-2) ... 189s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so.3 to provide /usr/lib/powerpc64le-linux-gnu/libblas.so.3 (libblas.so.3-powerpc64le-linux-gnu) in auto mode 189s Setting up liblzf1:ppc64el (3.6-4) ... 189s Setting up libgfortran5:ppc64el (15-20250213-1ubuntu1) ... 189s Setting up python3-dateutil (2.9.0-3) ... 189s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 189s Setting up libsz2:ppc64el (1.1.3-1) ... 189s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 189s Setting up liblapack3:ppc64el (3.12.1-2) ... 189s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so.3 (liblapack.so.3-powerpc64le-linux-gnu) in auto mode 189s Setting up python3-numpy (1:1.26.4+ds-13) ... 191s Setting up libjs-sphinxdoc (8.1.3-5) ... 191s Setting up libhdf5-310:ppc64el (1.14.5+repack-3) ... 191s Setting up liblbfgsb0:ppc64el (3.0+dfsg.4-1build1) ... 191s Setting up libhdf5-hl-310:ppc64el (1.14.5+repack-3) ... 191s Setting up python3-scipy (1.14.1-4ubuntu1) ... 195s Setting up python3-pandas-lib:ppc64el (2.2.3+dfsg-8) ... 195s Setting up python3-h5py-serial (3.12.1-1) ... 195s Setting up python-biom-format-doc (2.1.16-1build2) ... 195s Setting up python3-pandas (2.2.3+dfsg-8) ... 201s Setting up python3-h5py (3.12.1-1) ... 201s Setting up python3-biom-format (2.1.16-1build2) ... 201s Processing triggers for man-db (2.13.0-1) ... 202s Processing triggers for libc-bin (2.40-4ubuntu1) ... 204s autopkgtest [17:24:29]: test run-unit-test: [----------------------- 205s 205s System information 205s ================== 205s Platform: linux 205s Python version: 3.13.2 (main, Feb 5 2025, 01:23:35) [GCC 14.2.0] 205s Python executable: /usr/bin/python3 205s 205s Dependency versions 205s =================== 205s click version: 8.1.8 205s NumPy version: 1.26.4 205s SciPy version: 1.14.1 205s h5py version: 3.12.1 205s 205s biom-format package information 205s =============================== 205s biom-format version: 2.1.16 205s 206s 206s The input file is a valid BIOM-formatted file. 207s 207s The input file is a valid BIOM-formatted file. 208s 208s The input file is a valid BIOM-formatted file. 209s 209s The input file is a valid BIOM-formatted file. 211s + table=examples/min_sparse_otu_table_hdf5.biom 211s + obsmd=examples/obs_md.txt 211s + [ ! -f examples/min_sparse_otu_table_hdf5.biom ] 211s + biom show-install-info 212s 212s System information 212s ================== 212s Platform: linux 212s Python version: 3.13.2 (main, Feb 5 2025, 01:23:35) [GCC 14.2.0] 212s Python executable: /usr/bin/python3 212s 212s Dependency versions 212s =================== 212s click version: 8.1.8 212s NumPy version: 1.26.4 212s SciPy version: 1.14.1 212s h5py version: 3.12.1 212s 212s biom-format package information 212s =============================== 212s biom-format version: 2.1.16 212s 212s + biom validate-table -i examples/min_sparse_otu_table_hdf5.biom 213s 213s The input file is a valid BIOM-formatted file. 213s + 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 214s + biom convert -i examples/min_sparse_otu_table_hdf5.biom -o test_json.biom --to-json 215s + biom convert -i examples/min_sparse_otu_table_hdf5.biom -o test_tsv.txt --to-tsv 216s + biom validate-table -i test_json.biom 217s 217s The input file is a valid BIOM-formatted file. 217s + biom convert -i test_json.biom -o test_hdf5.biom --to-hdf5 218s + biom validate-table -i test_hdf5.biom 219s 219s The input file is a valid BIOM-formatted file. 219s + biom convert -i test_json.biom -o test_tsv.txt --to-tsv 220s + biom convert -i test_tsv.txt -o test_hdf5.biom --to-hdf5 --table-type OTU table 221s + biom validate-table -i test_hdf5.biom 221s 221s The input file is a valid BIOM-formatted file. 221s + biom convert -i test_tsv.txt -o test_json.biom --to-json --table-type OTU table 222s + biom validate-table -i test_json.biom 223s 223s The input file is a valid BIOM-formatted file. 223s + biom head -i examples/min_sparse_otu_table_hdf5.biom 224s # Constructed from biom file 224s #OTU ID Sample1 Sample2 Sample3 Sample4 Sample5 224s GG_OTU_1 0.0 0.0 1.0 0.0 0.0 224s GG_OTU_2 5.0 1.0 0.0 2.0 3.0 224s GG_OTU_3 0.0 0.0 1.0 4.0 0.0 224s GG_OTU_4 2.0 1.0 1.0 0.0 0.0 224s GG_OTU_5 0.0 1.0 1.0 0.0 0.0 224s + biom table-ids -i examples/min_sparse_otu_table_hdf5.biom 225s Sample1 225s Sample2 225s Sample3 225s Sample4 225s Sample5 225s Sample6 225s + biom normalize-table -i examples/min_sparse_otu_table_hdf5.biom -o test_norm.biom -p 226s + cat 226s + biom subset-table -i examples/min_sparse_otu_table_hdf5.biom -o test_subset.biom -a observation -s ids.txt 226s + biom summarize-table -i examples/min_sparse_otu_table_hdf5.biom 227s Num samples: 6 227s Num observations: 5 227s Total count: 27 227s Table density (fraction of non-zero values): 0.500 227s 227s Counts/sample summary: 227s Min: 3.000 227s Max: 7.000 227s Median: 4.000 227s Mean: 4.500 227s Std. dev.: 1.500 227s Sample Metadata Categories: None provided 227s Observation Metadata Categories: None provided 227s 227s Counts/sample detail: 227s Sample2: 3.000 227s Sample5: 3.000 227s Sample3: 4.000 227s Sample6: 4.000 227s Sample4: 6.000 227s Sample1: 7.000 228s + cat 228s + biom from-uc -i uctest -o test_uc.biom 229s If this message was shown, then all commands executed without failure 229s + echo If this message was shown, then all commands executed without failure 229s autopkgtest [17:24:54]: test run-unit-test: -----------------------] 229s autopkgtest [17:24:54]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 229s run-unit-test PASS 230s autopkgtest [17:24:55]: test autodep8-python3: preparing testbed 334s autopkgtest [17:26:39]: testbed dpkg architecture: ppc64el 334s autopkgtest [17:26:39]: testbed apt version: 2.9.29 335s autopkgtest [17:26:40]: @@@@@@@@@@@@@@@@@@@@ test bed setup 335s autopkgtest [17:26:40]: testbed release detected to be: plucky 336s autopkgtest [17:26:41]: updating testbed package index (apt update) 336s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [110 kB] 336s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 336s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 337s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 337s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [3120 B] 337s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [14.5 kB] 337s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [73.1 kB] 337s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [732 kB] 337s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el Packages [96.5 kB] 337s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted ppc64el Packages [760 B] 337s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe ppc64el Packages [667 kB] 337s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse ppc64el Packages [5760 B] 337s Fetched 1703 kB in 1s (1715 kB/s) 338s Reading package lists... 339s + lsb_release --codename --short 339s + RELEASE=plucky 339s + cat 339s + [ plucky != trusty ] 339s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y --allow-downgrades -o Dpkg::Options::=--force-confnew dist-upgrade 339s Reading package lists... 339s Building dependency tree... 339s Reading state information... 339s Calculating upgrade... 339s The following NEW packages will be installed: 339s libapt-pkg7.0 339s The following packages will be upgraded: 339s apt apt-utils dhcpcd-base iproute2 libgpgme11t64 liblsof0 libp11-kit0 lsof 339s rsyslog sysvinit-utils 340s 10 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 340s Need to get 5997 kB of archives. 340s After this operation, 3932 kB of additional disk space will be used. 340s Get:1 http://ftpmaster.internal/ubuntu plucky/main ppc64el sysvinit-utils ppc64el 3.14-1ubuntu1 [37.0 kB] 340s Get:2 http://ftpmaster.internal/ubuntu plucky/main ppc64el libapt-pkg7.0 ppc64el 2.9.30 [1152 kB] 341s Get:3 http://ftpmaster.internal/ubuntu plucky/main ppc64el apt ppc64el 2.9.30 [1439 kB] 341s Get:4 http://ftpmaster.internal/ubuntu plucky/main ppc64el apt-utils ppc64el 2.9.30 [228 kB] 341s Get:5 http://ftpmaster.internal/ubuntu plucky/main ppc64el dhcpcd-base ppc64el 1:10.1.0-7 [280 kB] 341s Get:6 http://ftpmaster.internal/ubuntu plucky/main ppc64el iproute2 ppc64el 6.13.0-1ubuntu1 [1419 kB] 342s Get:7 http://ftpmaster.internal/ubuntu plucky/main ppc64el libp11-kit0 ppc64el 0.25.5-2ubuntu3 [309 kB] 342s Get:8 http://ftpmaster.internal/ubuntu plucky/main ppc64el rsyslog ppc64el 8.2412.0-2ubuntu1 [632 kB] 342s Get:9 http://ftpmaster.internal/ubuntu plucky/main ppc64el lsof ppc64el 4.99.4+dfsg-1 [255 kB] 342s Get:10 http://ftpmaster.internal/ubuntu plucky/main ppc64el liblsof0 ppc64el 4.99.4+dfsg-1 [68.4 kB] 342s Get:11 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgpgme11t64 ppc64el 1.24.2-1ubuntu1 [177 kB] 343s Preconfiguring packages ... 343s Fetched 5997 kB in 3s (2330 kB/s) 343s (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 ... 106322 files and directories currently installed.) 343s Preparing to unpack .../sysvinit-utils_3.14-1ubuntu1_ppc64el.deb ... 343s Unpacking sysvinit-utils (3.14-1ubuntu1) over (3.08-6ubuntu3) ... 343s Setting up sysvinit-utils (3.14-1ubuntu1) ... 343s Selecting previously unselected package libapt-pkg7.0:ppc64el. 343s (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 ... 106322 files and directories currently installed.) 343s Preparing to unpack .../libapt-pkg7.0_2.9.30_ppc64el.deb ... 343s Unpacking libapt-pkg7.0:ppc64el (2.9.30) ... 343s Setting up libapt-pkg7.0:ppc64el (2.9.30) ... 344s (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 ... 106371 files and directories currently installed.) 344s Preparing to unpack .../apt_2.9.30_ppc64el.deb ... 344s Unpacking apt (2.9.30) over (2.9.29) ... 344s Setting up apt (2.9.30) ... 345s (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 ... 106371 files and directories currently installed.) 345s Preparing to unpack .../0-apt-utils_2.9.30_ppc64el.deb ... 345s Unpacking apt-utils (2.9.30) over (2.9.29) ... 345s Preparing to unpack .../1-dhcpcd-base_1%3a10.1.0-7_ppc64el.deb ... 345s Unpacking dhcpcd-base (1:10.1.0-7) over (1:10.1.0-6) ... 345s Preparing to unpack .../2-iproute2_6.13.0-1ubuntu1_ppc64el.deb ... 345s Unpacking iproute2 (6.13.0-1ubuntu1) over (6.10.0-2ubuntu1) ... 345s Preparing to unpack .../3-libp11-kit0_0.25.5-2ubuntu3_ppc64el.deb ... 345s Unpacking libp11-kit0:ppc64el (0.25.5-2ubuntu3) over (0.25.5-2ubuntu2) ... 345s Preparing to unpack .../4-rsyslog_8.2412.0-2ubuntu1_ppc64el.deb ... 345s Unpacking rsyslog (8.2412.0-2ubuntu1) over (8.2412.0-1ubuntu1) ... 345s Preparing to unpack .../5-lsof_4.99.4+dfsg-1_ppc64el.deb ... 345s Unpacking lsof (4.99.4+dfsg-1) over (4.99.3+dfsg-2) ... 345s Preparing to unpack .../6-liblsof0_4.99.4+dfsg-1_ppc64el.deb ... 345s Unpacking liblsof0 (4.99.4+dfsg-1) over (4.99.3+dfsg-2) ... 345s Preparing to unpack .../7-libgpgme11t64_1.24.2-1ubuntu1_ppc64el.deb ... 345s Unpacking libgpgme11t64:ppc64el (1.24.2-1ubuntu1) over (1.24.1-4ubuntu1) ... 345s Setting up apt-utils (2.9.30) ... 345s Setting up liblsof0 (4.99.4+dfsg-1) ... 345s Setting up iproute2 (6.13.0-1ubuntu1) ... 346s Setting up rsyslog (8.2412.0-2ubuntu1) ... 346s info: The user `syslog' is already a member of `adm'. 347s Setting up libp11-kit0:ppc64el (0.25.5-2ubuntu3) ... 347s Setting up dhcpcd-base (1:10.1.0-7) ... 347s Setting up lsof (4.99.4+dfsg-1) ... 347s Setting up libgpgme11t64:ppc64el (1.24.2-1ubuntu1) ... 347s Processing triggers for man-db (2.13.0-1) ... 351s Processing triggers for libc-bin (2.40-4ubuntu1) ... 351s + rm /etc/apt/preferences.d/force-downgrade-to-release.pref 351s + /usr/lib/apt/apt-helper analyze-pattern ?true 351s + uname -r 351s + sed s/\./\\./g 351s + running_kernel_pattern=^linux-.*6\.12\.0-15-generic.* 351s + apt list ?obsolete 351s + tail -n+2 351s + cut -d/ -f1 351s + grep -v ^linux-.*6\.12\.0-15-generic.* 352s + true 352s + obsolete_pkgs= 352s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y purge --autoremove 352s Reading package lists... 352s Building dependency tree... 352s Reading state information... 353s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 353s + grep -q trusty /etc/lsb-release 353s + [ ! -d /usr/share/doc/unattended-upgrades ] 353s + [ ! -d /usr/share/doc/lxd ] 353s + [ ! -d /usr/share/doc/lxd-client ] 353s + [ ! -d /usr/share/doc/snapd ] 353s + type iptables 353s + cat 353s + chmod 755 /etc/rc.local 353s + . /etc/rc.local 353s + iptables -w -t mangle -A FORWARD -p tcp --tcp-flags SYN,RST SYN -j TCPMSS --clamp-mss-to-pmtu 353s + iptables -A OUTPUT -d 10.255.255.1/32 -p tcp -j DROP 353s + iptables -A OUTPUT -d 10.255.255.2/32 -p tcp -j DROP 353s + uname -m 353s + [ ppc64le = ppc64le ] 353s + systemctl is-active keyboard-setup.service 353s + [ active = failed ] 353s + [ -d /run/systemd/system ] 353s + systemd-detect-virt --quiet --vm 353s + mkdir -p /etc/systemd/system/systemd-random-seed.service.d/ 353s + cat 353s + grep -q lz4 /etc/initramfs-tools/initramfs.conf 353s + echo COMPRESS=lz4 353s autopkgtest [17:26:58]: upgrading testbed (apt dist-upgrade and autopurge) 353s Reading package lists... 353s Building dependency tree... 353s Reading state information... 353s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 353s Starting 2 pkgProblemResolver with broken count: 0 353s Done 354s Entering ResolveByKeep 354s 354s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 354s Reading package lists... 355s Building dependency tree... 355s Reading state information... 355s Starting pkgProblemResolver with broken count: 0 355s Starting 2 pkgProblemResolver with broken count: 0 355s Done 355s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 356s autopkgtest [17:27:01]: rebooting testbed after setup commands that affected boot 390s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 400s Reading package lists... 400s Building dependency tree... 400s Reading state information... 401s Starting pkgProblemResolver with broken count: 0 401s Starting 2 pkgProblemResolver with broken count: 0 401s Done 401s The following NEW packages will be installed: 401s libaec0 libblas3 libgfortran5 libhdf5-310 libhdf5-hl-310 liblapack3 401s liblbfgsb0 liblzf1 libsz2 python3-all python3-biom-format python3-click 401s python3-dateutil python3-decorator python3-h5py python3-h5py-serial 401s python3-numpy python3-pandas python3-pandas-lib python3-pytz python3-scipy 401s python3-tz python3.12 python3.12-minimal 401s 0 upgraded, 24 newly installed, 0 to remove and 0 not upgraded. 401s Need to get 48.9 MB of archives. 401s After this operation, 297 MB of additional disk space will be used. 401s Get:1 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3.12-minimal ppc64el 3.12.9-1 [2465 kB] 402s Get:2 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3.12 ppc64el 3.12.9-1 [671 kB] 402s Get:3 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libaec0 ppc64el 1.1.3-1 [30.1 kB] 402s Get:4 http://ftpmaster.internal/ubuntu plucky/main ppc64el libblas3 ppc64el 3.12.1-2 [239 kB] 402s Get:5 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgfortran5 ppc64el 15-20250213-1ubuntu1 [613 kB] 402s Get:6 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libsz2 ppc64el 1.1.3-1 [5566 B] 402s Get:7 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libhdf5-310 ppc64el 1.14.5+repack-3 [1523 kB] 403s Get:8 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libhdf5-hl-310 ppc64el 1.14.5+repack-3 [74.9 kB] 403s Get:9 http://ftpmaster.internal/ubuntu plucky/main ppc64el liblapack3 ppc64el 3.12.1-2 [2813 kB] 403s Get:10 http://ftpmaster.internal/ubuntu plucky/universe ppc64el liblbfgsb0 ppc64el 3.0+dfsg.4-1build1 [33.0 kB] 403s Get:11 http://ftpmaster.internal/ubuntu plucky/universe ppc64el liblzf1 ppc64el 3.6-4 [7920 B] 403s Get:12 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-all ppc64el 3.13.1-1~exp2 [896 B] 403s Get:13 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-numpy ppc64el 1:1.26.4+ds-13 [5146 kB] 404s Get:14 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-h5py-serial ppc64el 3.12.1-1 [1603 kB] 404s Get:15 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-h5py all 3.12.1-1 [7970 B] 404s Get:16 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-click all 8.1.8-1 [79.8 kB] 404s Get:17 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-dateutil all 2.9.0-3 [80.2 kB] 404s Get:18 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-pytz all 2025.1-3 [162 kB] 404s Get:19 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-tz all 2025.1-3 [1866 B] 404s Get:20 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-pandas-lib ppc64el 2.2.3+dfsg-8 [7343 kB] 404s Get:21 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-pandas all 2.2.3+dfsg-8 [3112 kB] 404s Get:22 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-decorator all 5.1.1-5 [10.1 kB] 404s Get:23 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-scipy ppc64el 1.14.1-4ubuntu1 [22.7 MB] 405s Get:24 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-biom-format ppc64el 2.1.16-1build2 [183 kB] 406s Fetched 48.9 MB in 4s (11.7 MB/s) 406s Selecting previously unselected package python3.12-minimal. 406s (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 ... 106372 files and directories currently installed.) 406s Preparing to unpack .../00-python3.12-minimal_3.12.9-1_ppc64el.deb ... 406s Unpacking python3.12-minimal (3.12.9-1) ... 406s Selecting previously unselected package python3.12. 406s Preparing to unpack .../01-python3.12_3.12.9-1_ppc64el.deb ... 406s Unpacking python3.12 (3.12.9-1) ... 406s Selecting previously unselected package libaec0:ppc64el. 406s Preparing to unpack .../02-libaec0_1.1.3-1_ppc64el.deb ... 406s Unpacking libaec0:ppc64el (1.1.3-1) ... 406s Selecting previously unselected package libblas3:ppc64el. 406s Preparing to unpack .../03-libblas3_3.12.1-2_ppc64el.deb ... 406s Unpacking libblas3:ppc64el (3.12.1-2) ... 406s Selecting previously unselected package libgfortran5:ppc64el. 406s Preparing to unpack .../04-libgfortran5_15-20250213-1ubuntu1_ppc64el.deb ... 406s Unpacking libgfortran5:ppc64el (15-20250213-1ubuntu1) ... 406s Selecting previously unselected package libsz2:ppc64el. 406s Preparing to unpack .../05-libsz2_1.1.3-1_ppc64el.deb ... 406s Unpacking libsz2:ppc64el (1.1.3-1) ... 406s Selecting previously unselected package libhdf5-310:ppc64el. 406s Preparing to unpack .../06-libhdf5-310_1.14.5+repack-3_ppc64el.deb ... 406s Unpacking libhdf5-310:ppc64el (1.14.5+repack-3) ... 406s Selecting previously unselected package libhdf5-hl-310:ppc64el. 406s Preparing to unpack .../07-libhdf5-hl-310_1.14.5+repack-3_ppc64el.deb ... 406s Unpacking libhdf5-hl-310:ppc64el (1.14.5+repack-3) ... 406s Selecting previously unselected package liblapack3:ppc64el. 406s Preparing to unpack .../08-liblapack3_3.12.1-2_ppc64el.deb ... 406s Unpacking liblapack3:ppc64el (3.12.1-2) ... 406s Selecting previously unselected package liblbfgsb0:ppc64el. 406s Preparing to unpack .../09-liblbfgsb0_3.0+dfsg.4-1build1_ppc64el.deb ... 406s Unpacking liblbfgsb0:ppc64el (3.0+dfsg.4-1build1) ... 406s Selecting previously unselected package liblzf1:ppc64el. 406s Preparing to unpack .../10-liblzf1_3.6-4_ppc64el.deb ... 406s Unpacking liblzf1:ppc64el (3.6-4) ... 406s Selecting previously unselected package python3-all. 406s Preparing to unpack .../11-python3-all_3.13.1-1~exp2_ppc64el.deb ... 406s Unpacking python3-all (3.13.1-1~exp2) ... 406s Selecting previously unselected package python3-numpy. 406s Preparing to unpack .../12-python3-numpy_1%3a1.26.4+ds-13_ppc64el.deb ... 406s Unpacking python3-numpy (1:1.26.4+ds-13) ... 407s Selecting previously unselected package python3-h5py-serial. 407s Preparing to unpack .../13-python3-h5py-serial_3.12.1-1_ppc64el.deb ... 407s Unpacking python3-h5py-serial (3.12.1-1) ... 407s Selecting previously unselected package python3-h5py. 407s Preparing to unpack .../14-python3-h5py_3.12.1-1_all.deb ... 407s Unpacking python3-h5py (3.12.1-1) ... 407s Selecting previously unselected package python3-click. 407s Preparing to unpack .../15-python3-click_8.1.8-1_all.deb ... 407s Unpacking python3-click (8.1.8-1) ... 407s Selecting previously unselected package python3-dateutil. 407s Preparing to unpack .../16-python3-dateutil_2.9.0-3_all.deb ... 407s Unpacking python3-dateutil (2.9.0-3) ... 407s Selecting previously unselected package python3-pytz. 407s Preparing to unpack .../17-python3-pytz_2025.1-3_all.deb ... 407s Unpacking python3-pytz (2025.1-3) ... 407s Selecting previously unselected package python3-tz. 407s Preparing to unpack .../18-python3-tz_2025.1-3_all.deb ... 407s Unpacking python3-tz (2025.1-3) ... 407s Selecting previously unselected package python3-pandas-lib:ppc64el. 407s Preparing to unpack .../19-python3-pandas-lib_2.2.3+dfsg-8_ppc64el.deb ... 407s Unpacking python3-pandas-lib:ppc64el (2.2.3+dfsg-8) ... 407s Selecting previously unselected package python3-pandas. 407s Preparing to unpack .../20-python3-pandas_2.2.3+dfsg-8_all.deb ... 407s Unpacking python3-pandas (2.2.3+dfsg-8) ... 408s Selecting previously unselected package python3-decorator. 408s Preparing to unpack .../21-python3-decorator_5.1.1-5_all.deb ... 408s Unpacking python3-decorator (5.1.1-5) ... 408s Selecting previously unselected package python3-scipy. 408s Preparing to unpack .../22-python3-scipy_1.14.1-4ubuntu1_ppc64el.deb ... 408s Unpacking python3-scipy (1.14.1-4ubuntu1) ... 409s Selecting previously unselected package python3-biom-format. 409s Preparing to unpack .../23-python3-biom-format_2.1.16-1build2_ppc64el.deb ... 409s Unpacking python3-biom-format (2.1.16-1build2) ... 409s Setting up python3.12-minimal (3.12.9-1) ... 410s Setting up python3.12 (3.12.9-1) ... 412s Setting up python3-all (3.13.1-1~exp2) ... 412s Setting up python3-pytz (2025.1-3) ... 412s Setting up python3-click (8.1.8-1) ... 412s Setting up libaec0:ppc64el (1.1.3-1) ... 412s Setting up python3-tz (2025.1-3) ... 412s Setting up python3-decorator (5.1.1-5) ... 413s Setting up libblas3:ppc64el (3.12.1-2) ... 413s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so.3 to provide /usr/lib/powerpc64le-linux-gnu/libblas.so.3 (libblas.so.3-powerpc64le-linux-gnu) in auto mode 413s Setting up liblzf1:ppc64el (3.6-4) ... 413s Setting up libgfortran5:ppc64el (15-20250213-1ubuntu1) ... 413s Setting up python3-dateutil (2.9.0-3) ... 413s Setting up libsz2:ppc64el (1.1.3-1) ... 413s Setting up liblapack3:ppc64el (3.12.1-2) ... 413s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so.3 (liblapack.so.3-powerpc64le-linux-gnu) in auto mode 413s Setting up python3-numpy (1:1.26.4+ds-13) ... 417s Setting up libhdf5-310:ppc64el (1.14.5+repack-3) ... 417s Setting up liblbfgsb0:ppc64el (3.0+dfsg.4-1build1) ... 417s Setting up libhdf5-hl-310:ppc64el (1.14.5+repack-3) ... 417s Setting up python3-scipy (1.14.1-4ubuntu1) ... 425s Setting up python3-pandas-lib:ppc64el (2.2.3+dfsg-8) ... 425s Setting up python3-h5py-serial (3.12.1-1) ... 426s Setting up python3-pandas (2.2.3+dfsg-8) ... 439s Setting up python3-h5py (3.12.1-1) ... 439s Setting up python3-biom-format (2.1.16-1build2) ... 440s Processing triggers for systemd (257.2-3ubuntu1) ... 440s Processing triggers for man-db (2.13.0-1) ... 441s Processing triggers for libc-bin (2.40-4ubuntu1) ... 446s autopkgtest [17:28:31]: 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 446s autopkgtest [17:28:31]: test autodep8-python3: [----------------------- 446s Testing with python3.12: 448s 448s Testing with python3.13: 449s 449s autopkgtest [17:28:34]: test autodep8-python3: -----------------------] 450s autodep8-python3 PASS (superficial) 450s autopkgtest [17:28:35]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 450s autopkgtest [17:28:35]: @@@@@@@@@@@@@@@@@@@@ summary 450s run-unit-test PASS 450s autodep8-python3 PASS (superficial) 467s nova [W] Using flock in prodstack6-ppc64el 467s Creating nova instance adt-plucky-ppc64el-python-biom-format-20250219-172105-juju-7f2275-prod-proposed-migration-environment-15-c2aef45c-b027-4581-91a9-23c172fb0a72 from image adt/ubuntu-plucky-ppc64el-server-20250218.img (UUID 9318aa34-3d3c-43c5-86d2-aaf9390f2f5d)... 467s nova [W] Timed out waiting for 22709f04-3ecc-45e7-8171-d33f49a846b1 to get deleted. 467s nova [W] Using flock in prodstack6-ppc64el 467s Creating nova instance adt-plucky-ppc64el-python-biom-format-20250219-172105-juju-7f2275-prod-proposed-migration-environment-15-c2aef45c-b027-4581-91a9-23c172fb0a72 from image adt/ubuntu-plucky-ppc64el-server-20250218.img (UUID 9318aa34-3d3c-43c5-86d2-aaf9390f2f5d)... 467s nova [W] Timed out waiting for 3a4cd943-75d9-4607-a95b-02e38cd5c82a to get deleted.