0s autopkgtest [15:28:09]: starting date and time: 2024-11-13 15:28:09+0000 0s autopkgtest [15:28:09]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [15:28:09]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.zv6mecy_/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python3-defaults,src:python3-stdlib-extensions --apt-upgrade python-pyfaidx --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python3-defaults/3.12.7-1 python3-stdlib-extensions/3.12.7-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-s390x --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-s390x-2.secgroup --name adt-plucky-s390x-python-pyfaidx-20241113-152809-juju-7f2275-prod-proposed-migration-environment-20-9a51addc-451c-4ee3-81b1-44455972b0c3 --image adt/ubuntu-plucky-s390x-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --net-id=net_prod-proposed-migration-s390x -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'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 99s autopkgtest [15:29:48]: testbed dpkg architecture: s390x 99s autopkgtest [15:29:48]: testbed apt version: 2.9.8 99s autopkgtest [15:29:48]: @@@@@@@@@@@@@@@@@@@@ test bed setup 100s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 100s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [16.5 kB] 101s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [105 kB] 101s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 101s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [962 kB] 101s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x Packages [110 kB] 101s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x Packages [639 kB] 101s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse s390x Packages [17.4 kB] 101s Fetched 1931 kB in 1s (2377 kB/s) 101s Reading package lists... 103s Reading package lists... 103s Building dependency tree... 103s Reading state information... 103s Calculating upgrade... 103s The following NEW packages will be installed: 103s python3.13-gdbm 103s The following packages will be upgraded: 103s libgnutls30t64 libgpgme11t64 libjson-glib-1.0-0 libjson-glib-1.0-common 103s libpython3-stdlib libutempter0 python3 python3-gdbm python3-minimal 104s 9 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 104s Need to get 1285 kB of archives. 104s After this operation, 103 kB of additional disk space will be used. 104s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-minimal s390x 3.12.7-1 [27.4 kB] 104s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3 s390x 3.12.7-1 [24.0 kB] 104s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libpython3-stdlib s390x 3.12.7-1 [10.0 kB] 104s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x libgnutls30t64 s390x 3.8.8-2ubuntu1 [950 kB] 104s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x python3.13-gdbm s390x 3.13.0-2 [31.0 kB] 104s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-gdbm s390x 3.12.7-1 [8642 B] 104s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x libgpgme11t64 s390x 1.23.2-5ubuntu4 [151 kB] 104s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x libjson-glib-1.0-common all 1.10.0+ds-3 [5586 B] 104s Get:9 http://ftpmaster.internal/ubuntu plucky/main s390x libjson-glib-1.0-0 s390x 1.10.0+ds-3 [67.5 kB] 104s Get:10 http://ftpmaster.internal/ubuntu plucky/main s390x libutempter0 s390x 1.2.1-4 [9708 B] 104s Fetched 1285 kB in 1s (1622 kB/s) 105s (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 ... 55510 files and directories currently installed.) 105s Preparing to unpack .../python3-minimal_3.12.7-1_s390x.deb ... 105s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 105s Setting up python3-minimal (3.12.7-1) ... 105s (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 ... 55510 files and directories currently installed.) 105s Preparing to unpack .../python3_3.12.7-1_s390x.deb ... 105s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 105s Preparing to unpack .../libpython3-stdlib_3.12.7-1_s390x.deb ... 105s Unpacking libpython3-stdlib:s390x (3.12.7-1) over (3.12.6-0ubuntu1) ... 105s Preparing to unpack .../libgnutls30t64_3.8.8-2ubuntu1_s390x.deb ... 105s Unpacking libgnutls30t64:s390x (3.8.8-2ubuntu1) over (3.8.6-2ubuntu1) ... 105s Setting up libgnutls30t64:s390x (3.8.8-2ubuntu1) ... 105s Selecting previously unselected package python3.13-gdbm. 105s (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 ... 55510 files and directories currently installed.) 105s Preparing to unpack .../0-python3.13-gdbm_3.13.0-2_s390x.deb ... 105s Unpacking python3.13-gdbm (3.13.0-2) ... 105s Preparing to unpack .../1-python3-gdbm_3.12.7-1_s390x.deb ... 105s Unpacking python3-gdbm:s390x (3.12.7-1) over (3.12.6-1ubuntu1) ... 105s Preparing to unpack .../2-libgpgme11t64_1.23.2-5ubuntu4_s390x.deb ... 105s Unpacking libgpgme11t64:s390x (1.23.2-5ubuntu4) over (1.18.0-4.1ubuntu4) ... 105s Preparing to unpack .../3-libjson-glib-1.0-common_1.10.0+ds-3_all.deb ... 105s Unpacking libjson-glib-1.0-common (1.10.0+ds-3) over (1.10.0+ds-2) ... 105s Preparing to unpack .../4-libjson-glib-1.0-0_1.10.0+ds-3_s390x.deb ... 105s Unpacking libjson-glib-1.0-0:s390x (1.10.0+ds-3) over (1.10.0+ds-2) ... 105s Preparing to unpack .../5-libutempter0_1.2.1-4_s390x.deb ... 105s Unpacking libutempter0:s390x (1.2.1-4) over (1.2.1-3build1) ... 105s Setting up libutempter0:s390x (1.2.1-4) ... 105s Setting up libjson-glib-1.0-common (1.10.0+ds-3) ... 105s Setting up libgpgme11t64:s390x (1.23.2-5ubuntu4) ... 105s Setting up python3.13-gdbm (3.13.0-2) ... 105s Setting up libpython3-stdlib:s390x (3.12.7-1) ... 105s Setting up python3 (3.12.7-1) ... 105s Setting up libjson-glib-1.0-0:s390x (1.10.0+ds-3) ... 105s Setting up python3-gdbm:s390x (3.12.7-1) ... 105s Processing triggers for man-db (2.12.1-3) ... 106s Processing triggers for libc-bin (2.40-1ubuntu3) ... 106s Reading package lists... 106s Building dependency tree... 106s Reading state information... 106s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 106s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 107s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 107s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 107s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 107s Reading package lists... 107s Reading package lists... 108s Building dependency tree... 108s Reading state information... 108s Calculating upgrade... 108s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 108s Reading package lists... 108s Building dependency tree... 108s Reading state information... 108s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 111s autopkgtest [15:30:00]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP Mon Sep 16 12:49:35 UTC 2024 111s autopkgtest [15:30:00]: @@@@@@@@@@@@@@@@@@@@ apt-source python-pyfaidx 113s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.3-1 (dsc) [2544 B] 113s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.3-1 (tar) [96.5 kB] 113s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.3-1 (diff) [7096 B] 113s gpgv: Signature made Wed Oct 16 19:20:44 2024 UTC 113s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 113s gpgv: issuer "emollier@debian.org" 113s gpgv: Can't check signature: No public key 113s dpkg-source: warning: cannot verify inline signature for ./python-pyfaidx_0.8.1.3-1.dsc: no acceptable signature found 113s autopkgtest [15:30:02]: testing package python-pyfaidx version 0.8.1.3-1 113s autopkgtest [15:30:02]: build not needed 114s autopkgtest [15:30:03]: test run-unit-test: preparing testbed 116s Reading package lists... 116s Building dependency tree... 116s Reading state information... 116s Starting pkgProblemResolver with broken count: 0 116s Starting 2 pkgProblemResolver with broken count: 0 116s Done 117s The following additional packages will be installed: 117s fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 117s libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 libfreetype6 117s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libhtscodecs2 117s libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 117s libopenjp2-7 libpixman-1-0 libpython3.13-minimal libpython3.13-stdlib 117s libraqm0 libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 libwebpmux3 117s libxcb-render0 libxcb-shm0 libxrender1 python-pyfaidx-examples python3-all 117s python3-biopython python3-cairo python3-freetype python3-importlib-metadata 117s python3-iniconfig python3-numpy python3-packaging python3-pil python3-pluggy 117s python3-pyfaidx python3-pytest python3-reportlab python3-rlpycairo 117s python3.13 python3.13-minimal sgml-base tabix w3c-sgml-lib x11-common 117s xfonts-encodings xfonts-utils xml-core 117s Suggested packages: 117s fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre liblcms2-utils 117s python3-tk bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle3 117s phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf 117s python3-rdflib python3-psycopg2 python3-scipy raxml samtools t-coffee wise 117s gcc gfortran python-numpy-doc python3-dev python-pil-doc pdf-viewer 117s python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm 117s python3.13-venv python3.13-doc binfmt-support sgml-base-doc debhelper 117s Recommended packages: 117s python-biopython-doc ncbi-blast+ python3-olefile fonts-dejavu-extra 117s The following NEW packages will be installed: 117s autopkgtest-satdep fontconfig-config fonts-dejavu-core fonts-dejavu-mono 117s fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 117s libfreetype6 libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b 117s libhtscodecs2 libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 117s liblcms2-2 libopenjp2-7 libpixman-1-0 libpython3.13-minimal 117s libpython3.13-stdlib libraqm0 libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 117s libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1 python-pyfaidx-examples 117s python3-all python3-biopython python3-cairo python3-freetype 117s python3-importlib-metadata python3-iniconfig python3-numpy python3-packaging 117s python3-pil python3-pluggy python3-pyfaidx python3-pytest python3-reportlab 117s python3-rlpycairo python3.13 python3.13-minimal sgml-base tabix w3c-sgml-lib 117s x11-common xfonts-encodings xfonts-utils xml-core 117s 0 upgraded, 59 newly installed, 0 to remove and 0 not upgraded. 117s Need to get 35.0 MB/35.0 MB of archives. 117s After this operation, 112 MB of additional disk space will be used. 117s Get:1 /tmp/autopkgtest.8vUw52/1-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [756 B] 117s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x libpython3.13-minimal s390x 3.13.0-2 [877 kB] 117s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x python3.13-minimal s390x 3.13.0-2 [2172 kB] 118s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x sgml-base all 1.31 [11.4 kB] 118s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-mono all 2.37-8 [502 kB] 118s Get:6 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-core all 2.37-8 [835 kB] 118s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x libfontenc1 s390x 1:1.1.8-1build1 [14.8 kB] 118s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x libfreetype6 s390x 2.13.3+dfsg-1 [431 kB] 118s Get:9 http://ftpmaster.internal/ubuntu plucky/main s390x x11-common all 1:7.7+23ubuntu3 [21.7 kB] 118s Get:10 http://ftpmaster.internal/ubuntu plucky/main s390x xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 118s Get:11 http://ftpmaster.internal/ubuntu plucky/main s390x xfonts-utils s390x 1:7.7+7 [101 kB] 118s Get:12 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-urw-base35 all 20200910-8 [11.0 MB] 119s Get:13 http://ftpmaster.internal/ubuntu plucky/main s390x fontconfig-config s390x 2.15.0-1.1ubuntu2 [37.4 kB] 119s Get:14 http://ftpmaster.internal/ubuntu plucky/main s390x libblas3 s390x 3.12.0-3build2 [238 kB] 119s Get:15 http://ftpmaster.internal/ubuntu plucky/main s390x libfontconfig1 s390x 2.15.0-1.1ubuntu2 [150 kB] 119s Get:16 http://ftpmaster.internal/ubuntu plucky/main s390x libpixman-1-0 s390x 0.44.0-3 [201 kB] 119s Get:17 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-render0 s390x 1.17.0-2 [17.0 kB] 119s Get:18 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-shm0 s390x 1.17.0-2 [5862 B] 119s Get:19 http://ftpmaster.internal/ubuntu plucky/main s390x libxrender1 s390x 1:0.9.10-1.1build1 [20.4 kB] 119s Get:20 http://ftpmaster.internal/ubuntu plucky/main s390x libcairo2 s390x 1.18.2-2 [580 kB] 119s Get:21 http://ftpmaster.internal/ubuntu plucky/main s390x libdeflate0 s390x 1.22-1 [46.1 kB] 119s Get:22 http://ftpmaster.internal/ubuntu plucky/main s390x libgfortran5 s390x 14.2.0-8ubuntu1 [587 kB] 119s Get:23 http://ftpmaster.internal/ubuntu plucky/main s390x libgomp1 s390x 14.2.0-8ubuntu1 [151 kB] 119s Get:24 http://ftpmaster.internal/ubuntu plucky/main s390x libgraphite2-3 s390x 1.3.14-2ubuntu1 [79.8 kB] 119s Get:25 http://ftpmaster.internal/ubuntu plucky/main s390x libharfbuzz0b s390x 10.0.1-1 [536 kB] 120s Get:26 http://ftpmaster.internal/ubuntu plucky/universe s390x libhtscodecs2 s390x 1.6.1-1 [91.1 kB] 120s Get:27 http://ftpmaster.internal/ubuntu plucky/main s390x libimagequant0 s390x 2.18.0-1build1 [43.3 kB] 120s Get:28 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu2 [150 kB] 120s Get:29 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B] 120s Get:30 http://ftpmaster.internal/ubuntu plucky/main s390x liblapack3 s390x 3.12.0-3build2 [2953 kB] 120s Get:31 http://ftpmaster.internal/ubuntu plucky/main s390x liblcms2-2 s390x 2.16-2 [175 kB] 120s Get:32 http://ftpmaster.internal/ubuntu plucky/main s390x libpython3.13-stdlib s390x 3.13.0-2 [2086 kB] 120s Get:33 http://ftpmaster.internal/ubuntu plucky/main s390x libraqm0 s390x 0.10.1-1build1 [16.2 kB] 120s Get:34 http://ftpmaster.internal/ubuntu plucky/main s390x libsharpyuv0 s390x 1.4.0-0.1 [16.2 kB] 120s Get:35 http://ftpmaster.internal/ubuntu plucky/main s390x libjbig0 s390x 2.1-6.1ubuntu2 [33.1 kB] 120s Get:36 http://ftpmaster.internal/ubuntu plucky/main s390x libwebp7 s390x 1.4.0-0.1 [204 kB] 120s Get:37 http://ftpmaster.internal/ubuntu plucky/main s390x libtiff6 s390x 4.5.1+git230720-4ubuntu4 [217 kB] 120s Get:38 http://ftpmaster.internal/ubuntu plucky/main s390x libwebpdemux2 s390x 1.4.0-0.1 [12.2 kB] 120s Get:39 http://ftpmaster.internal/ubuntu plucky/main s390x libwebpmux3 s390x 1.4.0-0.1 [25.3 kB] 120s Get:40 http://ftpmaster.internal/ubuntu plucky/universe s390x python-pyfaidx-examples all 0.8.1.3-1 [38.6 kB] 120s Get:41 http://ftpmaster.internal/ubuntu plucky/main s390x python3.13 s390x 3.13.0-2 [719 kB] 120s Get:42 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-all s390x 3.12.7-1 [890 B] 120s Get:43 http://ftpmaster.internal/ubuntu plucky/main s390x python3-numpy s390x 1:1.26.4+ds-11build1 [4113 kB] 120s Get:44 http://ftpmaster.internal/ubuntu plucky/main s390x libopenjp2-7 s390x 2.5.0-2ubuntu1 [208 kB] 120s Get:45 http://ftpmaster.internal/ubuntu plucky/main s390x python3-pil s390x 10.4.0-1ubuntu1 [492 kB] 120s Get:46 http://ftpmaster.internal/ubuntu plucky/main s390x python3-cairo s390x 1.26.1-2 [119 kB] 120s Get:47 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-freetype all 2.5.1-1 [92.3 kB] 120s Get:48 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-rlpycairo all 0.3.0-3 [9130 B] 120s Get:49 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-reportlab all 4.2.5-1 [1107 kB] 120s Get:50 http://ftpmaster.internal/ubuntu plucky/main s390x xml-core all 0.19 [20.3 kB] 120s Get:51 http://ftpmaster.internal/ubuntu plucky/universe s390x w3c-sgml-lib all 1.3-3 [280 kB] 120s Get:52 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-biopython s390x 1.84+dfsg-4 [1721 kB] 120s Get:53 http://ftpmaster.internal/ubuntu plucky/main s390x python3-importlib-metadata all 8.5.0-1 [20.7 kB] 120s Get:54 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-iniconfig all 1.1.1-2 [6024 B] 120s Get:55 http://ftpmaster.internal/ubuntu plucky/main s390x python3-packaging all 24.1-1 [41.4 kB] 120s Get:56 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pluggy all 1.5.0-1 [21.0 kB] 120s Get:57 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pyfaidx all 0.8.1.3-1 [29.7 kB] 120s Get:58 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pytest all 8.3.3-1 [251 kB] 120s Get:59 http://ftpmaster.internal/ubuntu plucky/universe s390x tabix s390x 1.20+ds-1 [539 kB] 121s Fetched 35.0 MB in 4s (9428 kB/s) 121s Selecting previously unselected package libpython3.13-minimal:s390x. 121s (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 ... 55517 files and directories currently installed.) 121s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_s390x.deb ... 121s Unpacking libpython3.13-minimal:s390x (3.13.0-2) ... 121s Selecting previously unselected package python3.13-minimal. 121s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_s390x.deb ... 121s Unpacking python3.13-minimal (3.13.0-2) ... 121s Selecting previously unselected package sgml-base. 121s Preparing to unpack .../02-sgml-base_1.31_all.deb ... 121s Unpacking sgml-base (1.31) ... 121s Selecting previously unselected package fonts-dejavu-mono. 121s Preparing to unpack .../03-fonts-dejavu-mono_2.37-8_all.deb ... 121s Unpacking fonts-dejavu-mono (2.37-8) ... 121s Selecting previously unselected package fonts-dejavu-core. 121s Preparing to unpack .../04-fonts-dejavu-core_2.37-8_all.deb ... 121s Unpacking fonts-dejavu-core (2.37-8) ... 121s Selecting previously unselected package libfontenc1:s390x. 121s Preparing to unpack .../05-libfontenc1_1%3a1.1.8-1build1_s390x.deb ... 121s Unpacking libfontenc1:s390x (1:1.1.8-1build1) ... 121s Selecting previously unselected package libfreetype6:s390x. 121s Preparing to unpack .../06-libfreetype6_2.13.3+dfsg-1_s390x.deb ... 121s Unpacking libfreetype6:s390x (2.13.3+dfsg-1) ... 121s Selecting previously unselected package x11-common. 121s Preparing to unpack .../07-x11-common_1%3a7.7+23ubuntu3_all.deb ... 121s Unpacking x11-common (1:7.7+23ubuntu3) ... 121s Selecting previously unselected package xfonts-encodings. 121s Preparing to unpack .../08-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 121s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 121s Selecting previously unselected package xfonts-utils. 121s Preparing to unpack .../09-xfonts-utils_1%3a7.7+7_s390x.deb ... 121s Unpacking xfonts-utils (1:7.7+7) ... 121s Selecting previously unselected package fonts-urw-base35. 121s Preparing to unpack .../10-fonts-urw-base35_20200910-8_all.deb ... 121s Unpacking fonts-urw-base35 (20200910-8) ... 121s Selecting previously unselected package fontconfig-config. 121s Preparing to unpack .../11-fontconfig-config_2.15.0-1.1ubuntu2_s390x.deb ... 121s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 121s Selecting previously unselected package libblas3:s390x. 121s Preparing to unpack .../12-libblas3_3.12.0-3build2_s390x.deb ... 121s Unpacking libblas3:s390x (3.12.0-3build2) ... 121s Selecting previously unselected package libfontconfig1:s390x. 121s Preparing to unpack .../13-libfontconfig1_2.15.0-1.1ubuntu2_s390x.deb ... 121s Unpacking libfontconfig1:s390x (2.15.0-1.1ubuntu2) ... 121s Selecting previously unselected package libpixman-1-0:s390x. 121s Preparing to unpack .../14-libpixman-1-0_0.44.0-3_s390x.deb ... 121s Unpacking libpixman-1-0:s390x (0.44.0-3) ... 121s Selecting previously unselected package libxcb-render0:s390x. 121s Preparing to unpack .../15-libxcb-render0_1.17.0-2_s390x.deb ... 121s Unpacking libxcb-render0:s390x (1.17.0-2) ... 121s Selecting previously unselected package libxcb-shm0:s390x. 121s Preparing to unpack .../16-libxcb-shm0_1.17.0-2_s390x.deb ... 121s Unpacking libxcb-shm0:s390x (1.17.0-2) ... 121s Selecting previously unselected package libxrender1:s390x. 121s Preparing to unpack .../17-libxrender1_1%3a0.9.10-1.1build1_s390x.deb ... 121s Unpacking libxrender1:s390x (1:0.9.10-1.1build1) ... 121s Selecting previously unselected package libcairo2:s390x. 121s Preparing to unpack .../18-libcairo2_1.18.2-2_s390x.deb ... 121s Unpacking libcairo2:s390x (1.18.2-2) ... 121s Selecting previously unselected package libdeflate0:s390x. 121s Preparing to unpack .../19-libdeflate0_1.22-1_s390x.deb ... 121s Unpacking libdeflate0:s390x (1.22-1) ... 121s Selecting previously unselected package libgfortran5:s390x. 121s Preparing to unpack .../20-libgfortran5_14.2.0-8ubuntu1_s390x.deb ... 121s Unpacking libgfortran5:s390x (14.2.0-8ubuntu1) ... 121s Selecting previously unselected package libgomp1:s390x. 121s Preparing to unpack .../21-libgomp1_14.2.0-8ubuntu1_s390x.deb ... 121s Unpacking libgomp1:s390x (14.2.0-8ubuntu1) ... 121s Selecting previously unselected package libgraphite2-3:s390x. 121s Preparing to unpack .../22-libgraphite2-3_1.3.14-2ubuntu1_s390x.deb ... 121s Unpacking libgraphite2-3:s390x (1.3.14-2ubuntu1) ... 121s Selecting previously unselected package libharfbuzz0b:s390x. 121s Preparing to unpack .../23-libharfbuzz0b_10.0.1-1_s390x.deb ... 121s Unpacking libharfbuzz0b:s390x (10.0.1-1) ... 121s Selecting previously unselected package libhtscodecs2:s390x. 121s Preparing to unpack .../24-libhtscodecs2_1.6.1-1_s390x.deb ... 121s Unpacking libhtscodecs2:s390x (1.6.1-1) ... 121s Selecting previously unselected package libimagequant0:s390x. 121s Preparing to unpack .../25-libimagequant0_2.18.0-1build1_s390x.deb ... 121s Unpacking libimagequant0:s390x (2.18.0-1build1) ... 121s Selecting previously unselected package libjpeg-turbo8:s390x. 121s Preparing to unpack .../26-libjpeg-turbo8_2.1.5-2ubuntu2_s390x.deb ... 121s Unpacking libjpeg-turbo8:s390x (2.1.5-2ubuntu2) ... 121s Selecting previously unselected package libjpeg8:s390x. 121s Preparing to unpack .../27-libjpeg8_8c-2ubuntu11_s390x.deb ... 121s Unpacking libjpeg8:s390x (8c-2ubuntu11) ... 121s Selecting previously unselected package liblapack3:s390x. 121s Preparing to unpack .../28-liblapack3_3.12.0-3build2_s390x.deb ... 121s Unpacking liblapack3:s390x (3.12.0-3build2) ... 121s Selecting previously unselected package liblcms2-2:s390x. 121s Preparing to unpack .../29-liblcms2-2_2.16-2_s390x.deb ... 121s Unpacking liblcms2-2:s390x (2.16-2) ... 121s Selecting previously unselected package libpython3.13-stdlib:s390x. 121s Preparing to unpack .../30-libpython3.13-stdlib_3.13.0-2_s390x.deb ... 121s Unpacking libpython3.13-stdlib:s390x (3.13.0-2) ... 121s Selecting previously unselected package libraqm0:s390x. 121s Preparing to unpack .../31-libraqm0_0.10.1-1build1_s390x.deb ... 121s Unpacking libraqm0:s390x (0.10.1-1build1) ... 121s Selecting previously unselected package libsharpyuv0:s390x. 121s Preparing to unpack .../32-libsharpyuv0_1.4.0-0.1_s390x.deb ... 121s Unpacking libsharpyuv0:s390x (1.4.0-0.1) ... 121s Selecting previously unselected package libjbig0:s390x. 121s Preparing to unpack .../33-libjbig0_2.1-6.1ubuntu2_s390x.deb ... 121s Unpacking libjbig0:s390x (2.1-6.1ubuntu2) ... 121s Selecting previously unselected package libwebp7:s390x. 121s Preparing to unpack .../34-libwebp7_1.4.0-0.1_s390x.deb ... 121s Unpacking libwebp7:s390x (1.4.0-0.1) ... 121s Selecting previously unselected package libtiff6:s390x. 121s Preparing to unpack .../35-libtiff6_4.5.1+git230720-4ubuntu4_s390x.deb ... 121s Unpacking libtiff6:s390x (4.5.1+git230720-4ubuntu4) ... 121s Selecting previously unselected package libwebpdemux2:s390x. 121s Preparing to unpack .../36-libwebpdemux2_1.4.0-0.1_s390x.deb ... 121s Unpacking libwebpdemux2:s390x (1.4.0-0.1) ... 121s Selecting previously unselected package libwebpmux3:s390x. 121s Preparing to unpack .../37-libwebpmux3_1.4.0-0.1_s390x.deb ... 121s Unpacking libwebpmux3:s390x (1.4.0-0.1) ... 121s Selecting previously unselected package python-pyfaidx-examples. 121s Preparing to unpack .../38-python-pyfaidx-examples_0.8.1.3-1_all.deb ... 121s Unpacking python-pyfaidx-examples (0.8.1.3-1) ... 121s Selecting previously unselected package python3.13. 121s Preparing to unpack .../39-python3.13_3.13.0-2_s390x.deb ... 121s Unpacking python3.13 (3.13.0-2) ... 122s Selecting previously unselected package python3-all. 122s Preparing to unpack .../40-python3-all_3.12.7-1_s390x.deb ... 122s Unpacking python3-all (3.12.7-1) ... 122s Selecting previously unselected package python3-numpy. 122s Preparing to unpack .../41-python3-numpy_1%3a1.26.4+ds-11build1_s390x.deb ... 122s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 122s Selecting previously unselected package libopenjp2-7:s390x. 122s Preparing to unpack .../42-libopenjp2-7_2.5.0-2ubuntu1_s390x.deb ... 122s Unpacking libopenjp2-7:s390x (2.5.0-2ubuntu1) ... 122s Selecting previously unselected package python3-pil:s390x. 122s Preparing to unpack .../43-python3-pil_10.4.0-1ubuntu1_s390x.deb ... 122s Unpacking python3-pil:s390x (10.4.0-1ubuntu1) ... 122s Selecting previously unselected package python3-cairo. 122s Preparing to unpack .../44-python3-cairo_1.26.1-2_s390x.deb ... 122s Unpacking python3-cairo (1.26.1-2) ... 122s Selecting previously unselected package python3-freetype. 122s Preparing to unpack .../45-python3-freetype_2.5.1-1_all.deb ... 122s Unpacking python3-freetype (2.5.1-1) ... 122s Selecting previously unselected package python3-rlpycairo. 122s Preparing to unpack .../46-python3-rlpycairo_0.3.0-3_all.deb ... 122s Unpacking python3-rlpycairo (0.3.0-3) ... 122s Selecting previously unselected package python3-reportlab. 122s Preparing to unpack .../47-python3-reportlab_4.2.5-1_all.deb ... 122s Unpacking python3-reportlab (4.2.5-1) ... 122s Selecting previously unselected package xml-core. 122s Preparing to unpack .../48-xml-core_0.19_all.deb ... 122s Unpacking xml-core (0.19) ... 122s Selecting previously unselected package w3c-sgml-lib. 122s Preparing to unpack .../49-w3c-sgml-lib_1.3-3_all.deb ... 122s Unpacking w3c-sgml-lib (1.3-3) ... 122s Selecting previously unselected package python3-biopython. 122s Preparing to unpack .../50-python3-biopython_1.84+dfsg-4_s390x.deb ... 122s Unpacking python3-biopython (1.84+dfsg-4) ... 122s Selecting previously unselected package python3-importlib-metadata. 122s Preparing to unpack .../51-python3-importlib-metadata_8.5.0-1_all.deb ... 122s Unpacking python3-importlib-metadata (8.5.0-1) ... 122s Selecting previously unselected package python3-iniconfig. 122s Preparing to unpack .../52-python3-iniconfig_1.1.1-2_all.deb ... 122s Unpacking python3-iniconfig (1.1.1-2) ... 122s Selecting previously unselected package python3-packaging. 122s Preparing to unpack .../53-python3-packaging_24.1-1_all.deb ... 122s Unpacking python3-packaging (24.1-1) ... 122s Selecting previously unselected package python3-pluggy. 122s Preparing to unpack .../54-python3-pluggy_1.5.0-1_all.deb ... 122s Unpacking python3-pluggy (1.5.0-1) ... 122s Selecting previously unselected package python3-pyfaidx. 122s Preparing to unpack .../55-python3-pyfaidx_0.8.1.3-1_all.deb ... 122s Unpacking python3-pyfaidx (0.8.1.3-1) ... 122s Selecting previously unselected package python3-pytest. 122s Preparing to unpack .../56-python3-pytest_8.3.3-1_all.deb ... 122s Unpacking python3-pytest (8.3.3-1) ... 122s Selecting previously unselected package tabix. 122s Preparing to unpack .../57-tabix_1.20+ds-1_s390x.deb ... 122s Unpacking tabix (1.20+ds-1) ... 122s Selecting previously unselected package autopkgtest-satdep. 122s Preparing to unpack .../58-1-autopkgtest-satdep.deb ... 122s Unpacking autopkgtest-satdep (0) ... 122s Setting up libhtscodecs2:s390x (1.6.1-1) ... 122s Setting up libgraphite2-3:s390x (1.3.14-2ubuntu1) ... 122s Setting up liblcms2-2:s390x (2.16-2) ... 122s Setting up python3-iniconfig (1.1.1-2) ... 122s Setting up libpixman-1-0:s390x (0.44.0-3) ... 122s Setting up libsharpyuv0:s390x (1.4.0-0.1) ... 122s Setting up python3-importlib-metadata (8.5.0-1) ... 122s Setting up libxrender1:s390x (1:0.9.10-1.1build1) ... 122s Setting up python-pyfaidx-examples (0.8.1.3-1) ... 122s Setting up libxcb-render0:s390x (1.17.0-2) ... 122s Setting up x11-common (1:7.7+23ubuntu3) ... 123s Setting up libdeflate0:s390x (1.22-1) ... 123s Setting up libxcb-shm0:s390x (1.17.0-2) ... 123s Setting up libgomp1:s390x (14.2.0-8ubuntu1) ... 123s Setting up libjbig0:s390x (2.1-6.1ubuntu2) ... 123s Setting up libpython3.13-minimal:s390x (3.13.0-2) ... 123s Setting up libfontenc1:s390x (1:1.1.8-1build1) ... 123s Setting up libblas3:s390x (3.12.0-3build2) ... 123s update-alternatives: using /usr/lib/s390x-linux-gnu/blas/libblas.so.3 to provide /usr/lib/s390x-linux-gnu/libblas.so.3 (libblas.so.3-s390x-linux-gnu) in auto mode 123s Setting up python3-packaging (24.1-1) ... 123s Setting up libfreetype6:s390x (2.13.3+dfsg-1) ... 123s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 123s Setting up libimagequant0:s390x (2.18.0-1build1) ... 123s Setting up fonts-dejavu-mono (2.37-8) ... 123s Setting up fonts-dejavu-core (2.37-8) ... 123s Setting up libjpeg-turbo8:s390x (2.1.5-2ubuntu2) ... 123s Setting up libgfortran5:s390x (14.2.0-8ubuntu1) ... 123s Setting up python3-pluggy (1.5.0-1) ... 123s Setting up libwebp7:s390x (1.4.0-0.1) ... 123s Setting up libopenjp2-7:s390x (2.5.0-2ubuntu1) ... 123s Setting up python3.13-minimal (3.13.0-2) ... 124s Setting up libharfbuzz0b:s390x (10.0.1-1) ... 124s Setting up sgml-base (1.31) ... 124s Setting up libwebpmux3:s390x (1.4.0-0.1) ... 124s Setting up tabix (1.20+ds-1) ... 124s Setting up libpython3.13-stdlib:s390x (3.13.0-2) ... 124s Setting up libjpeg8:s390x (8c-2ubuntu11) ... 124s Setting up python3-pyfaidx (0.8.1.3-1) ... 124s Setting up liblapack3:s390x (3.12.0-3build2) ... 124s update-alternatives: using /usr/lib/s390x-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/s390x-linux-gnu/liblapack.so.3 (liblapack.so.3-s390x-linux-gnu) in auto mode 124s Setting up python3.13 (3.13.0-2) ... 125s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 125s Setting up python3-pytest (8.3.3-1) ... 126s Setting up libwebpdemux2:s390x (1.4.0-0.1) ... 126s Setting up python3-all (3.12.7-1) ... 126s Setting up python3-freetype (2.5.1-1) ... 126s Setting up xfonts-utils (1:7.7+7) ... 126s Setting up libraqm0:s390x (0.10.1-1build1) ... 126s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 130s Setting up libtiff6:s390x (4.5.1+git230720-4ubuntu4) ... 130s Setting up xml-core (0.19) ... 131s Setting up libfontconfig1:s390x (2.15.0-1.1ubuntu2) ... 131s Setting up fonts-urw-base35 (20200910-8) ... 131s Setting up libcairo2:s390x (1.18.2-2) ... 131s Setting up python3-pil:s390x (10.4.0-1ubuntu1) ... 131s Setting up python3-cairo (1.26.1-2) ... 131s Setting up python3-rlpycairo (0.3.0-3) ... 131s Setting up python3-reportlab (4.2.5-1) ... 133s Processing triggers for libc-bin (2.40-1ubuntu3) ... 133s Processing triggers for systemd (256.5-2ubuntu4) ... 133s Processing triggers for man-db (2.12.1-3) ... 133s Processing triggers for sgml-base (1.31) ... 133s Setting up w3c-sgml-lib (1.3-3) ... 155s Setting up python3-biopython (1.84+dfsg-4) ... 158s Setting up autopkgtest-satdep (0) ... 160s (Reading database ... 59721 files and directories currently installed.) 160s Removing autopkgtest-satdep (0) ... 161s autopkgtest [15:30:50]: test run-unit-test: [----------------------- 161s Testing with python3.13 in /tmp/autopkgtest.8vUw52/build.8rv/src: 161s ============================= test session starts ============================== 161s platform linux -- Python 3.13.0, pytest-8.3.3, pluggy-1.5.0 -- /usr/bin/python3.13 161s cachedir: .pytest_cache 161s rootdir: /tmp/autopkgtest.8vUw52/build.8rv/src 161s configfile: pyproject.toml 161s plugins: typeguard-4.4.1 161s collecting ... collected 136 items 161s 161s tests/test_FastaRecord.py::test_sequence_uppercase PASSED [ 0%] 161s tests/test_FastaRecord.py::test_long_names PASSED [ 1%] 161s tests/test_FastaRecord.py::test_issue_62 PASSED [ 2%] 161s tests/test_FastaRecord.py::test_unpadded_length PASSED [ 2%] 162s tests/test_FastaRecord.py::test_numpy_array FAILED [ 3%] 162s tests/test_FastaRecord_iter.py::test_fetch_whole_fasta PASSED [ 4%] 162s tests/test_FastaRecord_iter.py::test_line_len PASSED [ 5%] 162s tests/test_FastaRecord_iter.py::test_reverse_iter PASSED [ 5%] 162s tests/test_FastaVariant.py::test_fetch_variant SKIPPED (pysam not in...) [ 6%] 162s tests/test_FastaVariant.py::test_fetch_hom_variant SKIPPED (pysam no...) [ 7%] 162s tests/test_FastaVariant.py::test_fetch_het_variant SKIPPED (pysam no...) [ 8%] 162s tests/test_FastaVariant.py::test_fetch_chr_not_in_vcf SKIPPED (pysam...) [ 8%] 162s tests/test_FastaVariant.py::test_all_pos SKIPPED (pysam not installed.) [ 9%] 162s tests/test_FastaVariant.py::test_all_diff SKIPPED (pysam not installed.) [ 10%] 162s tests/test_Fasta_bgzip.py::test_build_issue_126 SKIPPED (Biopython i...) [ 11%] 162s tests/test_Fasta_bgzip.py::test_integer_slice PASSED [ 11%] 162s tests/test_Fasta_bgzip.py::test_integer_index PASSED [ 12%] 162s tests/test_Fasta_bgzip.py::test_fetch_whole_fasta PASSED [ 13%] 162s tests/test_Fasta_bgzip.py::test_line_len PASSED [ 13%] 162s tests/test_Fasta_bgzip.py::test_mutable_bgzf PASSED [ 14%] 162s tests/test_Fasta_bgzip.py::test_long_names XFAIL [ 15%] 162s tests/test_Fasta_bgzip.py::test_fetch_whole_entry PASSED [ 16%] 162s tests/test_Fasta_bgzip.py::test_fetch_middle PASSED [ 16%] 162s tests/test_Fasta_bgzip.py::test_fetch_end PASSED [ 17%] 162s tests/test_Fasta_bgzip.py::test_fetch_border PASSED [ 18%] 162s tests/test_Fasta_bgzip.py::test_rev PASSED [ 19%] 162s tests/test_Fasta_bgzip.py::test_fetch_past_bounds PASSED [ 19%] 162s tests/test_Fasta_bgzip.py::test_fetch_negative PASSED [ 20%] 162s tests/test_Fasta_bgzip.py::test_fetch_reversed_coordinates PASSED [ 21%] 162s tests/test_Fasta_bgzip.py::test_fetch_keyerror PASSED [ 22%] 162s tests/test_Fasta_bgzip.py::test_blank_string PASSED [ 22%] 162s tests/test_Fasta_bgzip.py::test_slice_from_beginning PASSED [ 23%] 162s tests/test_Fasta_bgzip.py::test_slice_from_end PASSED [ 24%] 162s tests/test_Fasta_bgzip.py::test_issue_74_start PASSED [ 25%] 162s tests/test_Fasta_bgzip.py::test_issue_74_consistency PASSED [ 25%] 162s tests/test_Fasta_bgzip.py::test_issue_74_end_faidx PASSED [ 26%] 162s tests/test_Fasta_bgzip.py::test_issue_74_end_fasta PASSED [ 27%] 162s tests/test_Fasta_bgzip.py::test_issue_79_fix PASSED [ 27%] 162s tests/test_Fasta_bgzip.py::test_issue_79_fix_negate PASSED [ 28%] 162s tests/test_Fasta_bgzip.py::test_issue_79_fix_one_based_false PASSED [ 29%] 162s tests/test_Fasta_bgzip.py::test_issue_79_fix_one_based_false_negate PASSED [ 30%] 162s tests/test_Fasta_bgzip.py::test_fetch_border_padded PASSED [ 30%] 162s tests/test_Fasta_integer_index.py::test_integer_slice PASSED [ 31%] 162s tests/test_Fasta_integer_index.py::test_integer_index PASSED [ 32%] 162s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_reads PASSED [ 33%] 162s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_reads_and_writes PASSED [ 33%] 162s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_writes PASSED [ 34%] 162s tests/test_Path.py::test_Faidx PASSED [ 35%] 162s tests/test_Path.py::test_Fasta PASSED [ 36%] 162s tests/test_bio_seqio.py::test_fetch_whole_entry SKIPPED (Biopython i...) 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[ 38%] 162s tests/test_faidx.py::test_short_line_lengths PASSED [ 38%] 162s tests/test_faidx.py::test_fetch_whole_file PASSED [ 39%] 162s tests/test_faidx.py::test_split_entry PASSED [ 40%] 162s tests/test_faidx.py::test_fetch_error PASSED [ 41%] 162s tests/test_faidx.py::test_key_warning PASSED [ 41%] 162s tests/test_faidx.py::test_auto_strand PASSED [ 42%] 162s tests/test_faidx.py::test_regexp PASSED [ 43%] 162s tests/test_faidx.py::test_not_regexp PASSED [ 44%] 162s tests/test_faidx.py::test_not_regexp_multi PASSED [ 44%] 162s tests/test_feature_bounds_check.py::test_index_zero_length PASSED [ 45%] 162s tests/test_feature_bounds_check.py::test_fetch_zero_length PASSED [ 46%] 162s tests/test_feature_bounds_check.py::test_as_raw_zero_length_subsequence PASSED [ 47%] 162s tests/test_feature_bounds_check.py::test_zero_length_subsequence PASSED [ 47%] 162s tests/test_feature_bounds_check.py::test_fetch_whole_entry PASSED [ 48%] 162s tests/test_feature_bounds_check.py::test_fetch_middle 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[ 93%] 169s tests/test_sequence_class.py::test_negate PASSED [ 94%] 169s tests/test_sequence_class.py::test_negate_metadata PASSED [ 94%] 169s tests/test_sequence_class.py::test_seq_invalid PASSED [ 95%] 169s tests/test_sequence_class.py::test_integer_index PASSED [ 96%] 169s tests/test_sequence_class.py::test_slice_index PASSED [ 97%] 169s tests/test_sequence_class.py::test_comp_invalid PASSED [ 97%] 169s tests/test_sequence_class.py::test_check_coordinates PASSED [ 98%] 169s tests/test_sequence_class.py::test_comp_valid PASSED [ 99%] 169s tests/test_sequence_class.py::test_comp_empty PASSED [100%] 169s 169s =================================== FAILURES =================================== 169s _______________________________ test_numpy_array _______________________________ 169s 169s """ 169s Contains the core of NumPy: ndarray, ufuncs, dtypes, etc. 169s 169s Please note that this module is private. All functions and objects 169s are available in the main ``numpy`` namespace - use that instead. 169s 169s """ 169s 169s import os 169s import warnings 169s 169s from numpy.version import version as __version__ 169s 169s 169s # disables OpenBLAS affinity setting of the main thread that limits 169s # python threads or processes to one core 169s env_added = [] 169s for envkey in ['OPENBLAS_MAIN_FREE', 'GOTOBLAS_MAIN_FREE']: 169s if envkey not in os.environ: 169s os.environ[envkey] = '1' 169s env_added.append(envkey) 169s 169s try: 169s > from . import multiarray 169s 169s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: 169s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 169s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 169s from . import overrides 169s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 169s 169s """Implementation of __array_function__ overrides from NEP-18.""" 169s import collections 169s import functools 169s import os 169s 169s from .._utils import set_module 169s from .._utils._inspect import getargspec 169s > from numpy.core._multiarray_umath import ( 169s add_docstring, _get_implementing_args, _ArrayFunctionDispatcher) 169s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 169s 169s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: ModuleNotFoundError 169s 169s During handling of the above exception, another exception occurred: 169s 169s """ 169s NumPy 169s ===== 169s 169s Provides 169s 1. An array object of arbitrary homogeneous items 169s 2. Fast mathematical operations over arrays 169s 3. Linear Algebra, Fourier Transforms, Random Number Generation 169s 169s How to use the documentation 169s ---------------------------- 169s Documentation is available in two forms: docstrings provided 169s with the code, and a loose standing reference guide, available from 169s `the NumPy homepage `_. 169s 169s We recommend exploring the docstrings using 169s `IPython `_, an advanced Python shell with 169s TAB-completion and introspection capabilities. See below for further 169s instructions. 169s 169s The docstring examples assume that `numpy` has been imported as ``np``:: 169s 169s >>> import numpy as np 169s 169s Code snippets are indicated by three greater-than signs:: 169s 169s >>> x = 42 169s >>> x = x + 1 169s 169s Use the built-in ``help`` function to view a function's docstring:: 169s 169s >>> help(np.sort) 169s ... # doctest: +SKIP 169s 169s For some objects, ``np.info(obj)`` may provide additional help. This is 169s particularly true if you see the line "Help on ufunc object:" at the top 169s of the help() page. Ufuncs are implemented in C, not Python, for speed. 169s The native Python help() does not know how to view their help, but our 169s np.info() function does. 169s 169s To search for documents containing a keyword, do:: 169s 169s >>> np.lookfor('keyword') 169s ... # doctest: +SKIP 169s 169s General-purpose documents like a glossary and help on the basic concepts 169s of numpy are available under the ``doc`` sub-module:: 169s 169s >>> from numpy import doc 169s >>> help(doc) 169s ... # doctest: +SKIP 169s 169s Available subpackages 169s --------------------- 169s lib 169s Basic functions used by several sub-packages. 169s random 169s Core Random Tools 169s linalg 169s Core Linear Algebra Tools 169s fft 169s Core FFT routines 169s polynomial 169s Polynomial tools 169s testing 169s NumPy testing tools 169s distutils 169s Enhancements to distutils with support for 169s Fortran compilers support and more (for Python <= 3.11). 169s 169s Utilities 169s --------- 169s test 169s Run numpy unittests 169s show_config 169s Show numpy build configuration 169s matlib 169s Make everything matrices. 169s __version__ 169s NumPy version string 169s 169s Viewing documentation using IPython 169s ----------------------------------- 169s 169s Start IPython and import `numpy` usually under the alias ``np``: `import 169s numpy as np`. Then, directly past or use the ``%cpaste`` magic to paste 169s examples into the shell. To see which functions are available in `numpy`, 169s type ``np.`` (where ```` refers to the TAB key), or use 169s ``np.*cos*?`` (where ```` refers to the ENTER key) to narrow 169s down the list. To view the docstring for a function, use 169s ``np.cos?`` (to view the docstring) and ``np.cos??`` (to view 169s the source code). 169s 169s Copies vs. in-place operation 169s ----------------------------- 169s Most of the functions in `numpy` return a copy of the array argument 169s (e.g., `np.sort`). In-place versions of these functions are often 169s available as array methods, i.e. ``x = np.array([1,2,3]); x.sort()``. 169s Exceptions to this rule are documented. 169s 169s """ 169s import sys 169s import warnings 169s 169s from ._globals import _NoValue, _CopyMode 169s # These exceptions were moved in 1.25 and are hidden from __dir__() 169s from .exceptions import ( 169s ComplexWarning, ModuleDeprecationWarning, VisibleDeprecationWarning, 169s TooHardError, AxisError) 169s 169s 169s # If a version with git hash was stored, use that instead 169s from . import version 169s from .version import __version__ 169s 169s # We first need to detect if we're being called as part of the numpy setup 169s # procedure itself in a reliable manner. 169s try: 169s __NUMPY_SETUP__ 169s except NameError: 169s __NUMPY_SETUP__ = False 169s 169s if __NUMPY_SETUP__: 169s sys.stderr.write('Running from numpy source directory.\n') 169s else: 169s # Allow distributors to run custom init code before importing numpy.core 169s from . import _distributor_init 169s 169s try: 169s > from numpy.__config__ import show as show_config 169s 169s /usr/lib/python3/dist-packages/numpy/__init__.py:130: 169s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 169s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 169s from numpy.core._multiarray_umath import ( 169s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 169s 169s """ 169s Contains the core of NumPy: ndarray, ufuncs, dtypes, etc. 169s 169s Please note that this module is private. All functions and objects 169s are available in the main ``numpy`` namespace - use that instead. 169s 169s """ 169s 169s import os 169s import warnings 169s 169s from numpy.version import version as __version__ 169s 169s 169s # disables OpenBLAS affinity setting of the main thread that limits 169s # python threads or processes to one core 169s env_added = [] 169s for envkey in ['OPENBLAS_MAIN_FREE', 'GOTOBLAS_MAIN_FREE']: 169s if envkey not in os.environ: 169s os.environ[envkey] = '1' 169s env_added.append(envkey) 169s 169s try: 169s from . import multiarray 169s except ImportError as exc: 169s import sys 169s msg = """ 169s 169s IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 169s 169s Importing the numpy C-extensions failed. This error can happen for 169s many reasons, often due to issues with your setup or how NumPy was 169s installed. 169s 169s We have compiled some common reasons and troubleshooting tips at: 169s 169s https://numpy.org/devdocs/user/troubleshooting-importerror.html 169s 169s Please note and check the following: 169s 169s * The Python version is: Python%d.%d from "%s" 169s * The NumPy version is: "%s" 169s 169s and make sure that they are the versions you expect. 169s Please carefully study the documentation linked above for further help. 169s 169s Original error was: %s 169s """ % (sys.version_info[0], sys.version_info[1], sys.executable, 169s __version__, exc) 169s > raise ImportError(msg) 169s E ImportError: 169s E 169s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 169s E 169s E Importing the numpy C-extensions failed. This error can happen for 169s E many reasons, often due to issues with your setup or how NumPy was 169s E installed. 169s E 169s E We have compiled some common reasons and troubleshooting tips at: 169s E 169s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 169s E 169s E Please note and check the following: 169s E 169s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 169s E * The NumPy version is: "1.26.4" 169s E 169s E and make sure that they are the versions you expect. 169s E Please carefully study the documentation linked above for further help. 169s E 169s E Original error was: No module named 'numpy.core._multiarray_umath' 169s 169s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: ImportError 169s 169s The above exception was the direct cause of the following exception: 169s 169s remove_index = None 169s 169s def test_numpy_array(remove_index): 169s """ Test the __array_interface__ """ 169s > import numpy 169s 169s /tmp/autopkgtest.8vUw52/build.8rv/src/tests/test_FastaRecord.py:103: 169s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 169s 169s """ 169s NumPy 169s ===== 169s 169s Provides 169s 1. An array object of arbitrary homogeneous items 169s 2. Fast mathematical operations over arrays 169s 3. Linear Algebra, Fourier Transforms, Random Number Generation 169s 169s How to use the documentation 169s ---------------------------- 169s Documentation is available in two forms: docstrings provided 169s with the code, and a loose standing reference guide, available from 169s `the NumPy homepage `_. 169s 169s We recommend exploring the docstrings using 169s `IPython `_, an advanced Python shell with 169s TAB-completion and introspection capabilities. See below for further 169s instructions. 169s 169s The docstring examples assume that `numpy` has been imported as ``np``:: 169s 169s >>> import numpy as np 169s 169s Code snippets are indicated by three greater-than signs:: 169s 169s >>> x = 42 169s >>> x = x + 1 169s 169s Use the built-in ``help`` function to view a function's docstring:: 169s 169s >>> help(np.sort) 169s ... # doctest: +SKIP 169s 169s For some objects, ``np.info(obj)`` may provide additional help. This is 169s particularly true if you see the line "Help on ufunc object:" at the top 169s of the help() page. Ufuncs are implemented in C, not Python, for speed. 169s The native Python help() does not know how to view their help, but our 169s np.info() function does. 169s 169s To search for documents containing a keyword, do:: 169s 169s >>> np.lookfor('keyword') 169s ... # doctest: +SKIP 169s 169s General-purpose documents like a glossary and help on the basic concepts 169s of numpy are available under the ``doc`` sub-module:: 169s 169s >>> from numpy import doc 169s >>> help(doc) 169s ... # doctest: +SKIP 169s 169s Available subpackages 169s --------------------- 169s lib 169s Basic functions used by several sub-packages. 169s random 169s Core Random Tools 169s linalg 169s Core Linear Algebra Tools 169s fft 169s Core FFT routines 169s polynomial 169s Polynomial tools 169s testing 169s NumPy testing tools 169s distutils 169s Enhancements to distutils with support for 169s Fortran compilers support and more (for Python <= 3.11). 169s 169s Utilities 169s --------- 169s test 169s Run numpy unittests 169s show_config 169s Show numpy build configuration 169s matlib 169s Make everything matrices. 169s __version__ 169s NumPy version string 169s 169s Viewing documentation using IPython 169s ----------------------------------- 169s 169s Start IPython and import `numpy` usually under the alias ``np``: `import 169s numpy as np`. Then, directly past or use the ``%cpaste`` magic to paste 169s examples into the shell. To see which functions are available in `numpy`, 169s type ``np.`` (where ```` refers to the TAB key), or use 169s ``np.*cos*?`` (where ```` refers to the ENTER key) to narrow 169s down the list. To view the docstring for a function, use 169s ``np.cos?`` (to view the docstring) and ``np.cos??`` (to view 169s the source code). 169s 169s Copies vs. in-place operation 169s ----------------------------- 169s Most of the functions in `numpy` return a copy of the array argument 169s (e.g., `np.sort`). In-place versions of these functions are often 169s available as array methods, i.e. ``x = np.array([1,2,3]); x.sort()``. 169s Exceptions to this rule are documented. 169s 169s """ 169s import sys 169s import warnings 169s 169s from ._globals import _NoValue, _CopyMode 169s # These exceptions were moved in 1.25 and are hidden from __dir__() 169s from .exceptions import ( 169s ComplexWarning, ModuleDeprecationWarning, VisibleDeprecationWarning, 169s TooHardError, AxisError) 169s 169s 169s # If a version with git hash was stored, use that instead 169s from . import version 169s from .version import __version__ 169s 169s # We first need to detect if we're being called as part of the numpy setup 169s # procedure itself in a reliable manner. 169s try: 169s __NUMPY_SETUP__ 169s except NameError: 169s __NUMPY_SETUP__ = False 169s 169s if __NUMPY_SETUP__: 169s sys.stderr.write('Running from numpy source directory.\n') 169s else: 169s # Allow distributors to run custom init code before importing numpy.core 169s from . import _distributor_init 169s 169s try: 169s from numpy.__config__ import show as show_config 169s except ImportError as e: 169s msg = """Error importing numpy: you should not try to import numpy from 169s its source directory; please exit the numpy source tree, and relaunch 169s your python interpreter from there.""" 169s > raise ImportError(msg) from e 169s E ImportError: Error importing numpy: you should not try to import numpy from 169s E its source directory; please exit the numpy source tree, and relaunch 169s E your python interpreter from there. 169s 169s /usr/lib/python3/dist-packages/numpy/__init__.py:135: ImportError 169s =========================== short test summary info ============================ 169s FAILED tests/test_FastaRecord.py::test_numpy_array - ImportError: Error impor... 169s ============= 1 failed, 120 passed, 14 skipped, 1 xfailed in 7.22s ============= 169s autopkgtest [15:30:58]: test run-unit-test: -----------------------] 169s autopkgtest [15:30:58]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 169s run-unit-test FAIL non-zero exit status 1 170s autopkgtest [15:30:59]: test autodep8-python3: preparing testbed 277s autopkgtest [15:32:46]: testbed dpkg architecture: s390x 277s autopkgtest [15:32:46]: testbed apt version: 2.9.8 277s autopkgtest [15:32:46]: @@@@@@@@@@@@@@@@@@@@ test bed setup 278s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 278s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [962 kB] 278s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 278s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [16.5 kB] 278s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [105 kB] 278s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x Packages [110 kB] 278s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x Packages [639 kB] 278s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse s390x Packages [17.4 kB] 278s Fetched 1931 kB in 1s (2587 kB/s) 278s Reading package lists... 280s Reading package lists... 280s Building dependency tree... 280s Reading state information... 281s Calculating upgrade... 281s The following NEW packages will be installed: 281s python3.13-gdbm 281s The following packages will be upgraded: 281s libgnutls30t64 libgpgme11t64 libjson-glib-1.0-0 libjson-glib-1.0-common 281s libpython3-stdlib libutempter0 python3 python3-gdbm python3-minimal 281s 9 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 281s Need to get 1285 kB of archives. 281s After this operation, 103 kB of additional disk space will be used. 281s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-minimal s390x 3.12.7-1 [27.4 kB] 281s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3 s390x 3.12.7-1 [24.0 kB] 281s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libpython3-stdlib s390x 3.12.7-1 [10.0 kB] 281s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x libgnutls30t64 s390x 3.8.8-2ubuntu1 [950 kB] 281s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x python3.13-gdbm s390x 3.13.0-2 [31.0 kB] 281s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-gdbm s390x 3.12.7-1 [8642 B] 281s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x libgpgme11t64 s390x 1.23.2-5ubuntu4 [151 kB] 281s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x libjson-glib-1.0-common all 1.10.0+ds-3 [5586 B] 281s Get:9 http://ftpmaster.internal/ubuntu plucky/main s390x libjson-glib-1.0-0 s390x 1.10.0+ds-3 [67.5 kB] 281s Get:10 http://ftpmaster.internal/ubuntu plucky/main s390x libutempter0 s390x 1.2.1-4 [9708 B] 282s Fetched 1285 kB in 1s (2206 kB/s) 282s (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 ... 55510 files and directories currently installed.) 282s Preparing to unpack .../python3-minimal_3.12.7-1_s390x.deb ... 282s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 282s Setting up python3-minimal (3.12.7-1) ... 282s (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 ... 55510 files and directories currently installed.) 282s Preparing to unpack .../python3_3.12.7-1_s390x.deb ... 282s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 282s Preparing to unpack .../libpython3-stdlib_3.12.7-1_s390x.deb ... 282s Unpacking libpython3-stdlib:s390x (3.12.7-1) over (3.12.6-0ubuntu1) ... 282s Preparing to unpack .../libgnutls30t64_3.8.8-2ubuntu1_s390x.deb ... 282s Unpacking libgnutls30t64:s390x (3.8.8-2ubuntu1) over (3.8.6-2ubuntu1) ... 282s Setting up libgnutls30t64:s390x (3.8.8-2ubuntu1) ... 282s Selecting previously unselected package python3.13-gdbm. 282s (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 ... 55510 files and directories currently installed.) 282s Preparing to unpack .../0-python3.13-gdbm_3.13.0-2_s390x.deb ... 282s Unpacking python3.13-gdbm (3.13.0-2) ... 282s Preparing to unpack .../1-python3-gdbm_3.12.7-1_s390x.deb ... 282s Unpacking python3-gdbm:s390x (3.12.7-1) over (3.12.6-1ubuntu1) ... 282s Preparing to unpack .../2-libgpgme11t64_1.23.2-5ubuntu4_s390x.deb ... 282s Unpacking libgpgme11t64:s390x (1.23.2-5ubuntu4) over (1.18.0-4.1ubuntu4) ... 282s Preparing to unpack .../3-libjson-glib-1.0-common_1.10.0+ds-3_all.deb ... 282s Unpacking libjson-glib-1.0-common (1.10.0+ds-3) over (1.10.0+ds-2) ... 282s Preparing to unpack .../4-libjson-glib-1.0-0_1.10.0+ds-3_s390x.deb ... 282s Unpacking libjson-glib-1.0-0:s390x (1.10.0+ds-3) over (1.10.0+ds-2) ... 282s Preparing to unpack .../5-libutempter0_1.2.1-4_s390x.deb ... 282s Unpacking libutempter0:s390x (1.2.1-4) over (1.2.1-3build1) ... 282s Setting up libutempter0:s390x (1.2.1-4) ... 282s Setting up libjson-glib-1.0-common (1.10.0+ds-3) ... 282s Setting up libgpgme11t64:s390x (1.23.2-5ubuntu4) ... 282s Setting up python3.13-gdbm (3.13.0-2) ... 282s Setting up libpython3-stdlib:s390x (3.12.7-1) ... 282s Setting up python3 (3.12.7-1) ... 282s Setting up libjson-glib-1.0-0:s390x (1.10.0+ds-3) ... 282s Setting up python3-gdbm:s390x (3.12.7-1) ... 282s Processing triggers for man-db (2.12.1-3) ... 283s Processing triggers for libc-bin (2.40-1ubuntu3) ... 283s Reading package lists... 283s Building dependency tree... 283s Reading state information... 283s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 284s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 284s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 284s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 284s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 284s Reading package lists... 284s Reading package lists... 285s Building dependency tree... 285s Reading state information... 285s Calculating upgrade... 285s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 285s Reading package lists... 285s Building dependency tree... 285s Reading state information... 285s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 289s Reading package lists... 289s Building dependency tree... 289s Reading state information... 289s Starting pkgProblemResolver with broken count: 0 289s Starting 2 pkgProblemResolver with broken count: 0 289s Done 290s The following additional packages will be installed: 290s libpython3.13-minimal libpython3.13-stdlib python3-all 290s python3-importlib-metadata python3-packaging python3-pyfaidx python3.13 290s python3.13-minimal 290s Suggested packages: 290s python3.13-venv python3.13-doc binfmt-support 290s Recommended packages: 290s python3-biopython 290s The following NEW packages will be installed: 290s autopkgtest-satdep libpython3.13-minimal libpython3.13-stdlib python3-all 290s python3-importlib-metadata python3-packaging python3-pyfaidx python3.13 290s python3.13-minimal 290s 0 upgraded, 9 newly installed, 0 to remove and 0 not upgraded. 290s Need to get 5947 kB/5948 kB of archives. 290s After this operation, 22.9 MB of additional disk space will be used. 290s Get:1 /tmp/autopkgtest.8vUw52/2-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [716 B] 290s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x libpython3.13-minimal s390x 3.13.0-2 [877 kB] 290s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x python3.13-minimal s390x 3.13.0-2 [2172 kB] 290s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x libpython3.13-stdlib s390x 3.13.0-2 [2086 kB] 290s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x python3.13 s390x 3.13.0-2 [719 kB] 290s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-all s390x 3.12.7-1 [890 B] 290s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x python3-importlib-metadata all 8.5.0-1 [20.7 kB] 290s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x python3-packaging all 24.1-1 [41.4 kB] 290s Get:9 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pyfaidx all 0.8.1.3-1 [29.7 kB] 291s Fetched 5947 kB in 1s (7672 kB/s) 291s Selecting previously unselected package libpython3.13-minimal:s390x. 291s (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 ... 55517 files and directories currently installed.) 291s Preparing to unpack .../0-libpython3.13-minimal_3.13.0-2_s390x.deb ... 291s Unpacking libpython3.13-minimal:s390x (3.13.0-2) ... 291s Selecting previously unselected package python3.13-minimal. 291s Preparing to unpack .../1-python3.13-minimal_3.13.0-2_s390x.deb ... 291s Unpacking python3.13-minimal (3.13.0-2) ... 291s Selecting previously unselected package libpython3.13-stdlib:s390x. 291s Preparing to unpack .../2-libpython3.13-stdlib_3.13.0-2_s390x.deb ... 291s Unpacking libpython3.13-stdlib:s390x (3.13.0-2) ... 291s Selecting previously unselected package python3.13. 291s Preparing to unpack .../3-python3.13_3.13.0-2_s390x.deb ... 291s Unpacking python3.13 (3.13.0-2) ... 291s Selecting previously unselected package python3-all. 291s Preparing to unpack .../4-python3-all_3.12.7-1_s390x.deb ... 291s Unpacking python3-all (3.12.7-1) ... 291s Selecting previously unselected package python3-importlib-metadata. 291s Preparing to unpack .../5-python3-importlib-metadata_8.5.0-1_all.deb ... 291s Unpacking python3-importlib-metadata (8.5.0-1) ... 291s Selecting previously unselected package python3-packaging. 291s Preparing to unpack .../6-python3-packaging_24.1-1_all.deb ... 291s Unpacking python3-packaging (24.1-1) ... 291s Selecting previously unselected package python3-pyfaidx. 291s Preparing to unpack .../7-python3-pyfaidx_0.8.1.3-1_all.deb ... 291s Unpacking python3-pyfaidx (0.8.1.3-1) ... 291s Selecting previously unselected package autopkgtest-satdep. 291s Preparing to unpack .../8-2-autopkgtest-satdep.deb ... 291s Unpacking autopkgtest-satdep (0) ... 291s Setting up python3-importlib-metadata (8.5.0-1) ... 291s Setting up libpython3.13-minimal:s390x (3.13.0-2) ... 291s Setting up python3-packaging (24.1-1) ... 291s Setting up python3.13-minimal (3.13.0-2) ... 292s Setting up libpython3.13-stdlib:s390x (3.13.0-2) ... 292s Setting up python3-pyfaidx (0.8.1.3-1) ... 292s Setting up python3.13 (3.13.0-2) ... 293s Setting up python3-all (3.12.7-1) ... 293s Setting up autopkgtest-satdep (0) ... 293s Processing triggers for man-db (2.12.1-3) ... 294s Processing triggers for systemd (256.5-2ubuntu4) ... 295s (Reading database ... 56312 files and directories currently installed.) 295s Removing autopkgtest-satdep (0) ... 297s autopkgtest [15:33:06]: test autodep8-python3: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import pyfaidx; print(pyfaidx)" ; done 297s autopkgtest [15:33:06]: test autodep8-python3: [----------------------- 297s Testing with python3.13: 297s 297s Testing with python3.12: 297s 297s autopkgtest [15:33:06]: test autodep8-python3: -----------------------] 298s autodep8-python3 PASS (superficial) 298s autopkgtest [15:33:07]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 298s autopkgtest [15:33:07]: @@@@@@@@@@@@@@@@@@@@ summary 298s run-unit-test FAIL non-zero exit status 1 298s autodep8-python3 PASS (superficial) 303s nova [W] Using flock in prodstack6-s390x 303s flock: timeout while waiting to get lock 303s Creating nova instance adt-plucky-s390x-python-pyfaidx-20241113-152809-juju-7f2275-prod-proposed-migration-environment-20-9a51addc-451c-4ee3-81b1-44455972b0c3 from image adt/ubuntu-plucky-s390x-server-20241113.img (UUID e740277e-1f72-40ae-bfbe-46030537c71c)... 303s nova [W] Using flock in prodstack6-s390x 303s flock: timeout while waiting to get lock 303s Creating nova instance adt-plucky-s390x-python-pyfaidx-20241113-152809-juju-7f2275-prod-proposed-migration-environment-20-9a51addc-451c-4ee3-81b1-44455972b0c3 from image adt/ubuntu-plucky-s390x-server-20241113.img (UUID e740277e-1f72-40ae-bfbe-46030537c71c)...