0s autopkgtest [16:21:14]: starting date and time: 2024-11-13 16:21:14+0000 0s autopkgtest [16:21:14]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [16:21:14]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.lwbfmgeu/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 seqmagick --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-15@bos03-s390x-30.secgroup --name adt-plucky-s390x-seqmagick-20241113-162114-juju-7f2275-prod-proposed-migration-environment-15-4fa7f0a2-0a14-4d1c-82ad-4169ed525944 --image adt/ubuntu-plucky-s390x-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --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/ 104s autopkgtest [16:22:58]: testbed dpkg architecture: s390x 104s autopkgtest [16:22:58]: testbed apt version: 2.9.8 104s autopkgtest [16:22:58]: @@@@@@@@@@@@@@@@@@@@ test bed setup 105s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 105s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [950 kB] 106s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [104 kB] 106s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [17.2 kB] 106s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 106s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x Packages [110 kB] 106s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x Packages [636 kB] 106s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse s390x Packages [17.8 kB] 106s Fetched 1916 kB in 1s (2586 kB/s) 106s Reading package lists... 108s Reading package lists... 108s Building dependency tree... 108s Reading state information... 108s Calculating upgrade... 108s The following NEW packages will be installed: 108s python3.13-gdbm 108s The following packages will be upgraded: 108s libgnutls30t64 libgpgme11t64 libjson-glib-1.0-0 libjson-glib-1.0-common 108s libpython3-stdlib libutempter0 python3 python3-gdbm python3-minimal 108s 9 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 108s Need to get 1285 kB of archives. 108s After this operation, 103 kB of additional disk space will be used. 108s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-minimal s390x 3.12.7-1 [27.4 kB] 108s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3 s390x 3.12.7-1 [24.0 kB] 108s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libpython3-stdlib s390x 3.12.7-1 [10.0 kB] 108s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x libgnutls30t64 s390x 3.8.8-2ubuntu1 [950 kB] 109s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x python3.13-gdbm s390x 3.13.0-2 [31.0 kB] 109s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-gdbm s390x 3.12.7-1 [8642 B] 109s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x libgpgme11t64 s390x 1.23.2-5ubuntu4 [151 kB] 109s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x libjson-glib-1.0-common all 1.10.0+ds-3 [5586 B] 109s Get:9 http://ftpmaster.internal/ubuntu plucky/main s390x libjson-glib-1.0-0 s390x 1.10.0+ds-3 [67.5 kB] 109s Get:10 http://ftpmaster.internal/ubuntu plucky/main s390x libutempter0 s390x 1.2.1-4 [9708 B] 109s Fetched 1285 kB in 1s (2128 kB/s) 109s (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.) 109s Preparing to unpack .../python3-minimal_3.12.7-1_s390x.deb ... 109s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 109s Setting up python3-minimal (3.12.7-1) ... 109s (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.) 109s Preparing to unpack .../python3_3.12.7-1_s390x.deb ... 109s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 109s Preparing to unpack .../libpython3-stdlib_3.12.7-1_s390x.deb ... 109s Unpacking libpython3-stdlib:s390x (3.12.7-1) over (3.12.6-0ubuntu1) ... 109s Preparing to unpack .../libgnutls30t64_3.8.8-2ubuntu1_s390x.deb ... 109s Unpacking libgnutls30t64:s390x (3.8.8-2ubuntu1) over (3.8.6-2ubuntu1) ... 109s Setting up libgnutls30t64:s390x (3.8.8-2ubuntu1) ... 109s Selecting previously unselected package python3.13-gdbm. 109s (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.) 109s Preparing to unpack .../0-python3.13-gdbm_3.13.0-2_s390x.deb ... 109s Unpacking python3.13-gdbm (3.13.0-2) ... 109s Preparing to unpack .../1-python3-gdbm_3.12.7-1_s390x.deb ... 109s Unpacking python3-gdbm:s390x (3.12.7-1) over (3.12.6-1ubuntu1) ... 109s Preparing to unpack .../2-libgpgme11t64_1.23.2-5ubuntu4_s390x.deb ... 109s Unpacking libgpgme11t64:s390x (1.23.2-5ubuntu4) over (1.18.0-4.1ubuntu4) ... 109s Preparing to unpack .../3-libjson-glib-1.0-common_1.10.0+ds-3_all.deb ... 109s Unpacking libjson-glib-1.0-common (1.10.0+ds-3) over (1.10.0+ds-2) ... 109s Preparing to unpack .../4-libjson-glib-1.0-0_1.10.0+ds-3_s390x.deb ... 109s Unpacking libjson-glib-1.0-0:s390x (1.10.0+ds-3) over (1.10.0+ds-2) ... 109s Preparing to unpack .../5-libutempter0_1.2.1-4_s390x.deb ... 109s Unpacking libutempter0:s390x (1.2.1-4) over (1.2.1-3build1) ... 109s Setting up libutempter0:s390x (1.2.1-4) ... 109s Setting up libjson-glib-1.0-common (1.10.0+ds-3) ... 109s Setting up libgpgme11t64:s390x (1.23.2-5ubuntu4) ... 109s Setting up python3.13-gdbm (3.13.0-2) ... 109s Setting up libpython3-stdlib:s390x (3.12.7-1) ... 109s Setting up python3 (3.12.7-1) ... 109s Setting up libjson-glib-1.0-0:s390x (1.10.0+ds-3) ... 109s Setting up python3-gdbm:s390x (3.12.7-1) ... 109s Processing triggers for man-db (2.12.1-3) ... 110s Processing triggers for libc-bin (2.40-1ubuntu3) ... 110s Reading package lists... 110s Building dependency tree... 110s Reading state information... 110s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 111s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 111s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 111s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 111s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 111s Reading package lists... 111s Reading package lists... 111s Building dependency tree... 111s Reading state information... 112s Calculating upgrade... 112s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 112s Reading package lists... 112s Building dependency tree... 112s Reading state information... 112s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 114s autopkgtest [16:23:08]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP Mon Sep 16 12:49:35 UTC 2024 115s autopkgtest [16:23:09]: @@@@@@@@@@@@@@@@@@@@ apt-source seqmagick 116s Get:1 http://ftpmaster.internal/ubuntu plucky/universe seqmagick 0.8.6-3 (dsc) [2262 B] 116s Get:2 http://ftpmaster.internal/ubuntu plucky/universe seqmagick 0.8.6-3 (tar) [665 kB] 116s Get:3 http://ftpmaster.internal/ubuntu plucky/universe seqmagick 0.8.6-3 (diff) [6012 B] 116s gpgv: Signature made Tue Aug 6 20:16:33 2024 UTC 116s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 116s gpgv: issuer "emollier@debian.org" 116s gpgv: Can't check signature: No public key 116s dpkg-source: warning: cannot verify inline signature for ./seqmagick_0.8.6-3.dsc: no acceptable signature found 116s autopkgtest [16:23:10]: testing package seqmagick version 0.8.6-3 117s autopkgtest [16:23:11]: build not needed 118s autopkgtest [16:23:12]: test run-unit-test: preparing testbed 122s Reading package lists... 122s Building dependency tree... 122s Reading state information... 122s Starting pkgProblemResolver with broken count: 0 122s Starting 2 pkgProblemResolver with broken count: 0 122s Done 123s The following additional packages will be installed: 123s fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 123s libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 libfreetype6 123s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libimagequant0 libjbig0 123s libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 libopenjp2-7 libpixman-1-0 123s libraqm0 libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 libwebpmux3 123s libxcb-render0 libxcb-shm0 libxrender1 python3-biopython python3-cairo 123s python3-freetype python3-numpy python3-pil python3-pygtrie python3-reportlab 123s python3-rlpycairo seqmagick sgml-base w3c-sgml-lib x11-common 123s xfonts-encodings xfonts-utils xml-core 123s Suggested packages: 123s fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre liblcms2-utils 123s python3-tk bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle3 123s phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf 123s python3-rdflib python3-psycopg2 python3-scipy raxml samtools t-coffee wise 123s gcc gfortran python-numpy-doc python3-dev python3-pytest python-pil-doc 123s python-pygtrie-doc pdf-viewer python3-egenix-mxtexttools 123s python-reportlab-doc rl-accel rl-renderpm sgml-base-doc debhelper 123s Recommended packages: 123s python-biopython-doc ncbi-blast+ python3-olefile fonts-dejavu-extra 123s The following NEW packages will be installed: 123s autopkgtest-satdep fontconfig-config fonts-dejavu-core fonts-dejavu-mono 123s fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 123s libfreetype6 libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b 123s libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 123s libopenjp2-7 libpixman-1-0 libraqm0 libsharpyuv0 libtiff6 libwebp7 123s libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1 123s python3-biopython python3-cairo python3-freetype python3-numpy python3-pil 123s python3-pygtrie python3-reportlab python3-rlpycairo seqmagick sgml-base 123s w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 123s 0 upgraded, 47 newly installed, 0 to remove and 0 not upgraded. 123s Need to get 28.2 MB/28.2 MB of archives. 123s After this operation, 85.2 MB of additional disk space will be used. 123s Get:1 /tmp/autopkgtest.KIeWTB/1-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [704 B] 123s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x sgml-base all 1.31 [11.4 kB] 123s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-mono all 2.37-8 [502 kB] 123s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-core all 2.37-8 [835 kB] 123s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x libfontenc1 s390x 1:1.1.8-1build1 [14.8 kB] 123s Get:6 http://ftpmaster.internal/ubuntu plucky/main s390x libfreetype6 s390x 2.13.3+dfsg-1 [431 kB] 123s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x x11-common all 1:7.7+23ubuntu3 [21.7 kB] 123s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 123s Get:9 http://ftpmaster.internal/ubuntu plucky/main s390x xfonts-utils s390x 1:7.7+7 [101 kB] 123s Get:10 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-urw-base35 all 20200910-8 [11.0 MB] 124s Get:11 http://ftpmaster.internal/ubuntu plucky/main s390x fontconfig-config s390x 2.15.0-1.1ubuntu2 [37.4 kB] 124s Get:12 http://ftpmaster.internal/ubuntu plucky/main s390x libblas3 s390x 3.12.0-3build2 [238 kB] 124s Get:13 http://ftpmaster.internal/ubuntu plucky/main s390x libfontconfig1 s390x 2.15.0-1.1ubuntu2 [150 kB] 124s Get:14 http://ftpmaster.internal/ubuntu plucky/main s390x libpixman-1-0 s390x 0.44.0-3 [201 kB] 124s Get:15 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-render0 s390x 1.17.0-2 [17.0 kB] 124s Get:16 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-shm0 s390x 1.17.0-2 [5862 B] 124s Get:17 http://ftpmaster.internal/ubuntu plucky/main s390x libxrender1 s390x 1:0.9.10-1.1build1 [20.4 kB] 124s Get:18 http://ftpmaster.internal/ubuntu plucky/main s390x libcairo2 s390x 1.18.2-2 [580 kB] 124s Get:19 http://ftpmaster.internal/ubuntu plucky/main s390x libdeflate0 s390x 1.22-1 [46.1 kB] 124s Get:20 http://ftpmaster.internal/ubuntu plucky/main s390x libgfortran5 s390x 14.2.0-8ubuntu1 [587 kB] 124s Get:21 http://ftpmaster.internal/ubuntu plucky/main s390x libgomp1 s390x 14.2.0-8ubuntu1 [151 kB] 124s Get:22 http://ftpmaster.internal/ubuntu plucky/main s390x libgraphite2-3 s390x 1.3.14-2ubuntu1 [79.8 kB] 124s Get:23 http://ftpmaster.internal/ubuntu plucky/main s390x libharfbuzz0b s390x 10.0.1-1 [536 kB] 124s Get:24 http://ftpmaster.internal/ubuntu plucky/main s390x libimagequant0 s390x 2.18.0-1build1 [43.3 kB] 124s Get:25 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu2 [150 kB] 124s Get:26 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B] 124s Get:27 http://ftpmaster.internal/ubuntu plucky/main s390x liblapack3 s390x 3.12.0-3build2 [2953 kB] 124s Get:28 http://ftpmaster.internal/ubuntu plucky/main s390x liblcms2-2 s390x 2.16-2 [175 kB] 124s Get:29 http://ftpmaster.internal/ubuntu plucky/main s390x libraqm0 s390x 0.10.1-1build1 [16.2 kB] 124s Get:30 http://ftpmaster.internal/ubuntu plucky/main s390x libsharpyuv0 s390x 1.4.0-0.1 [16.2 kB] 124s Get:31 http://ftpmaster.internal/ubuntu plucky/main s390x libjbig0 s390x 2.1-6.1ubuntu2 [33.1 kB] 124s Get:32 http://ftpmaster.internal/ubuntu plucky/main s390x libwebp7 s390x 1.4.0-0.1 [204 kB] 124s Get:33 http://ftpmaster.internal/ubuntu plucky/main s390x libtiff6 s390x 4.5.1+git230720-4ubuntu4 [217 kB] 124s Get:34 http://ftpmaster.internal/ubuntu plucky/main s390x libwebpdemux2 s390x 1.4.0-0.1 [12.2 kB] 124s Get:35 http://ftpmaster.internal/ubuntu plucky/main s390x libwebpmux3 s390x 1.4.0-0.1 [25.3 kB] 124s Get:36 http://ftpmaster.internal/ubuntu plucky/main s390x python3-numpy s390x 1:1.26.4+ds-11build1 [4113 kB] 124s Get:37 http://ftpmaster.internal/ubuntu plucky/main s390x libopenjp2-7 s390x 2.5.0-2ubuntu1 [208 kB] 124s Get:38 http://ftpmaster.internal/ubuntu plucky/main s390x python3-pil s390x 10.4.0-1ubuntu1 [492 kB] 124s Get:39 http://ftpmaster.internal/ubuntu plucky/main s390x python3-cairo s390x 1.26.1-2 [119 kB] 124s Get:40 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-freetype all 2.5.1-1 [92.3 kB] 124s Get:41 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-rlpycairo all 0.3.0-3 [9130 B] 124s Get:42 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-reportlab all 4.2.5-1 [1107 kB] 124s Get:43 http://ftpmaster.internal/ubuntu plucky/main s390x xml-core all 0.19 [20.3 kB] 124s Get:44 http://ftpmaster.internal/ubuntu plucky/universe s390x w3c-sgml-lib all 1.3-3 [280 kB] 124s Get:45 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-biopython s390x 1.84+dfsg-4 [1721 kB] 124s Get:46 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pygtrie all 2.2-2 [16.0 kB] 124s Get:47 http://ftpmaster.internal/ubuntu plucky/universe s390x seqmagick all 0.8.6-3 [38.6 kB] 124s Fetched 28.2 MB in 1s (19.3 MB/s) 124s Selecting previously unselected package sgml-base. 124s (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.) 124s Preparing to unpack .../00-sgml-base_1.31_all.deb ... 124s Unpacking sgml-base (1.31) ... 124s Selecting previously unselected package fonts-dejavu-mono. 124s Preparing to unpack .../01-fonts-dejavu-mono_2.37-8_all.deb ... 124s Unpacking fonts-dejavu-mono (2.37-8) ... 124s Selecting previously unselected package fonts-dejavu-core. 124s Preparing to unpack .../02-fonts-dejavu-core_2.37-8_all.deb ... 124s Unpacking fonts-dejavu-core (2.37-8) ... 124s Selecting previously unselected package libfontenc1:s390x. 124s Preparing to unpack .../03-libfontenc1_1%3a1.1.8-1build1_s390x.deb ... 124s Unpacking libfontenc1:s390x (1:1.1.8-1build1) ... 124s Selecting previously unselected package libfreetype6:s390x. 124s Preparing to unpack .../04-libfreetype6_2.13.3+dfsg-1_s390x.deb ... 124s Unpacking libfreetype6:s390x (2.13.3+dfsg-1) ... 124s Selecting previously unselected package x11-common. 124s Preparing to unpack .../05-x11-common_1%3a7.7+23ubuntu3_all.deb ... 124s Unpacking x11-common (1:7.7+23ubuntu3) ... 124s Selecting previously unselected package xfonts-encodings. 124s Preparing to unpack .../06-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 124s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 124s Selecting previously unselected package xfonts-utils. 124s Preparing to unpack .../07-xfonts-utils_1%3a7.7+7_s390x.deb ... 124s Unpacking xfonts-utils (1:7.7+7) ... 124s Selecting previously unselected package fonts-urw-base35. 124s Preparing to unpack .../08-fonts-urw-base35_20200910-8_all.deb ... 124s Unpacking fonts-urw-base35 (20200910-8) ... 125s Selecting previously unselected package fontconfig-config. 125s Preparing to unpack .../09-fontconfig-config_2.15.0-1.1ubuntu2_s390x.deb ... 125s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 125s Selecting previously unselected package libblas3:s390x. 125s Preparing to unpack .../10-libblas3_3.12.0-3build2_s390x.deb ... 125s Unpacking libblas3:s390x (3.12.0-3build2) ... 125s Selecting previously unselected package libfontconfig1:s390x. 125s Preparing to unpack .../11-libfontconfig1_2.15.0-1.1ubuntu2_s390x.deb ... 125s Unpacking libfontconfig1:s390x (2.15.0-1.1ubuntu2) ... 125s Selecting previously unselected package libpixman-1-0:s390x. 125s Preparing to unpack .../12-libpixman-1-0_0.44.0-3_s390x.deb ... 125s Unpacking libpixman-1-0:s390x (0.44.0-3) ... 125s Selecting previously unselected package libxcb-render0:s390x. 125s Preparing to unpack .../13-libxcb-render0_1.17.0-2_s390x.deb ... 125s Unpacking libxcb-render0:s390x (1.17.0-2) ... 125s Selecting previously unselected package libxcb-shm0:s390x. 125s Preparing to unpack .../14-libxcb-shm0_1.17.0-2_s390x.deb ... 125s Unpacking libxcb-shm0:s390x (1.17.0-2) ... 125s Selecting previously unselected package libxrender1:s390x. 125s Preparing to unpack .../15-libxrender1_1%3a0.9.10-1.1build1_s390x.deb ... 125s Unpacking libxrender1:s390x (1:0.9.10-1.1build1) ... 125s Selecting previously unselected package libcairo2:s390x. 125s Preparing to unpack .../16-libcairo2_1.18.2-2_s390x.deb ... 125s Unpacking libcairo2:s390x (1.18.2-2) ... 125s Selecting previously unselected package libdeflate0:s390x. 125s Preparing to unpack .../17-libdeflate0_1.22-1_s390x.deb ... 125s Unpacking libdeflate0:s390x (1.22-1) ... 125s Selecting previously unselected package libgfortran5:s390x. 125s Preparing to unpack .../18-libgfortran5_14.2.0-8ubuntu1_s390x.deb ... 125s Unpacking libgfortran5:s390x (14.2.0-8ubuntu1) ... 125s Selecting previously unselected package libgomp1:s390x. 125s Preparing to unpack .../19-libgomp1_14.2.0-8ubuntu1_s390x.deb ... 125s Unpacking libgomp1:s390x (14.2.0-8ubuntu1) ... 125s Selecting previously unselected package libgraphite2-3:s390x. 125s Preparing to unpack .../20-libgraphite2-3_1.3.14-2ubuntu1_s390x.deb ... 125s Unpacking libgraphite2-3:s390x (1.3.14-2ubuntu1) ... 125s Selecting previously unselected package libharfbuzz0b:s390x. 125s Preparing to unpack .../21-libharfbuzz0b_10.0.1-1_s390x.deb ... 125s Unpacking libharfbuzz0b:s390x (10.0.1-1) ... 125s Selecting previously unselected package libimagequant0:s390x. 125s Preparing to unpack .../22-libimagequant0_2.18.0-1build1_s390x.deb ... 125s Unpacking libimagequant0:s390x (2.18.0-1build1) ... 125s Selecting previously unselected package libjpeg-turbo8:s390x. 125s Preparing to unpack .../23-libjpeg-turbo8_2.1.5-2ubuntu2_s390x.deb ... 125s Unpacking libjpeg-turbo8:s390x (2.1.5-2ubuntu2) ... 125s Selecting previously unselected package libjpeg8:s390x. 125s Preparing to unpack .../24-libjpeg8_8c-2ubuntu11_s390x.deb ... 125s Unpacking libjpeg8:s390x (8c-2ubuntu11) ... 125s Selecting previously unselected package liblapack3:s390x. 125s Preparing to unpack .../25-liblapack3_3.12.0-3build2_s390x.deb ... 125s Unpacking liblapack3:s390x (3.12.0-3build2) ... 125s Selecting previously unselected package liblcms2-2:s390x. 125s Preparing to unpack .../26-liblcms2-2_2.16-2_s390x.deb ... 125s Unpacking liblcms2-2:s390x (2.16-2) ... 125s Selecting previously unselected package libraqm0:s390x. 125s Preparing to unpack .../27-libraqm0_0.10.1-1build1_s390x.deb ... 125s Unpacking libraqm0:s390x (0.10.1-1build1) ... 125s Selecting previously unselected package libsharpyuv0:s390x. 125s Preparing to unpack .../28-libsharpyuv0_1.4.0-0.1_s390x.deb ... 125s Unpacking libsharpyuv0:s390x (1.4.0-0.1) ... 125s Selecting previously unselected package libjbig0:s390x. 125s Preparing to unpack .../29-libjbig0_2.1-6.1ubuntu2_s390x.deb ... 125s Unpacking libjbig0:s390x (2.1-6.1ubuntu2) ... 125s Selecting previously unselected package libwebp7:s390x. 125s Preparing to unpack .../30-libwebp7_1.4.0-0.1_s390x.deb ... 125s Unpacking libwebp7:s390x (1.4.0-0.1) ... 125s Selecting previously unselected package libtiff6:s390x. 125s Preparing to unpack .../31-libtiff6_4.5.1+git230720-4ubuntu4_s390x.deb ... 125s Unpacking libtiff6:s390x (4.5.1+git230720-4ubuntu4) ... 125s Selecting previously unselected package libwebpdemux2:s390x. 125s Preparing to unpack .../32-libwebpdemux2_1.4.0-0.1_s390x.deb ... 125s Unpacking libwebpdemux2:s390x (1.4.0-0.1) ... 125s Selecting previously unselected package libwebpmux3:s390x. 125s Preparing to unpack .../33-libwebpmux3_1.4.0-0.1_s390x.deb ... 125s Unpacking libwebpmux3:s390x (1.4.0-0.1) ... 125s Selecting previously unselected package python3-numpy. 125s Preparing to unpack .../34-python3-numpy_1%3a1.26.4+ds-11build1_s390x.deb ... 125s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 125s Selecting previously unselected package libopenjp2-7:s390x. 125s Preparing to unpack .../35-libopenjp2-7_2.5.0-2ubuntu1_s390x.deb ... 125s Unpacking libopenjp2-7:s390x (2.5.0-2ubuntu1) ... 125s Selecting previously unselected package python3-pil:s390x. 125s Preparing to unpack .../36-python3-pil_10.4.0-1ubuntu1_s390x.deb ... 125s Unpacking python3-pil:s390x (10.4.0-1ubuntu1) ... 125s Selecting previously unselected package python3-cairo. 125s Preparing to unpack .../37-python3-cairo_1.26.1-2_s390x.deb ... 125s Unpacking python3-cairo (1.26.1-2) ... 125s Selecting previously unselected package python3-freetype. 125s Preparing to unpack .../38-python3-freetype_2.5.1-1_all.deb ... 125s Unpacking python3-freetype (2.5.1-1) ... 125s Selecting previously unselected package python3-rlpycairo. 125s Preparing to unpack .../39-python3-rlpycairo_0.3.0-3_all.deb ... 125s Unpacking python3-rlpycairo (0.3.0-3) ... 125s Selecting previously unselected package python3-reportlab. 125s Preparing to unpack .../40-python3-reportlab_4.2.5-1_all.deb ... 125s Unpacking python3-reportlab (4.2.5-1) ... 125s Selecting previously unselected package xml-core. 125s Preparing to unpack .../41-xml-core_0.19_all.deb ... 125s Unpacking xml-core (0.19) ... 125s Selecting previously unselected package w3c-sgml-lib. 125s Preparing to unpack .../42-w3c-sgml-lib_1.3-3_all.deb ... 125s Unpacking w3c-sgml-lib (1.3-3) ... 125s Selecting previously unselected package python3-biopython. 125s Preparing to unpack .../43-python3-biopython_1.84+dfsg-4_s390x.deb ... 125s Unpacking python3-biopython (1.84+dfsg-4) ... 125s Selecting previously unselected package python3-pygtrie. 125s Preparing to unpack .../44-python3-pygtrie_2.2-2_all.deb ... 125s Unpacking python3-pygtrie (2.2-2) ... 125s Selecting previously unselected package seqmagick. 125s Preparing to unpack .../45-seqmagick_0.8.6-3_all.deb ... 125s Unpacking seqmagick (0.8.6-3) ... 125s Selecting previously unselected package autopkgtest-satdep. 125s Preparing to unpack .../46-1-autopkgtest-satdep.deb ... 125s Unpacking autopkgtest-satdep (0) ... 125s Setting up libgraphite2-3:s390x (1.3.14-2ubuntu1) ... 125s Setting up liblcms2-2:s390x (2.16-2) ... 125s Setting up libpixman-1-0:s390x (0.44.0-3) ... 125s Setting up libsharpyuv0:s390x (1.4.0-0.1) ... 125s Setting up libxrender1:s390x (1:0.9.10-1.1build1) ... 125s Setting up libxcb-render0:s390x (1.17.0-2) ... 125s Setting up x11-common (1:7.7+23ubuntu3) ... 126s Setting up libdeflate0:s390x (1.22-1) ... 126s Setting up libxcb-shm0:s390x (1.17.0-2) ... 126s Setting up libgomp1:s390x (14.2.0-8ubuntu1) ... 126s Setting up libjbig0:s390x (2.1-6.1ubuntu2) ... 126s Setting up libfontenc1:s390x (1:1.1.8-1build1) ... 126s Setting up python3-pygtrie (2.2-2) ... 126s Setting up libblas3:s390x (3.12.0-3build2) ... 126s 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 126s Setting up libfreetype6:s390x (2.13.3+dfsg-1) ... 126s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 126s Setting up libimagequant0:s390x (2.18.0-1build1) ... 126s Setting up fonts-dejavu-mono (2.37-8) ... 126s Setting up fonts-dejavu-core (2.37-8) ... 126s Setting up libjpeg-turbo8:s390x (2.1.5-2ubuntu2) ... 126s Setting up libgfortran5:s390x (14.2.0-8ubuntu1) ... 126s Setting up libwebp7:s390x (1.4.0-0.1) ... 126s Setting up libopenjp2-7:s390x (2.5.0-2ubuntu1) ... 126s Setting up libharfbuzz0b:s390x (10.0.1-1) ... 126s Setting up sgml-base (1.31) ... 126s Setting up libwebpmux3:s390x (1.4.0-0.1) ... 126s Setting up libjpeg8:s390x (8c-2ubuntu11) ... 126s Setting up liblapack3:s390x (3.12.0-3build2) ... 126s 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 126s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 126s Setting up libwebpdemux2:s390x (1.4.0-0.1) ... 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) ... 128s Setting up libtiff6:s390x (4.5.1+git230720-4ubuntu4) ... 128s Setting up xml-core (0.19) ... 128s Setting up libfontconfig1:s390x (2.15.0-1.1ubuntu2) ... 128s Setting up fonts-urw-base35 (20200910-8) ... 128s Setting up libcairo2:s390x (1.18.2-2) ... 128s Setting up python3-pil:s390x (10.4.0-1ubuntu1) ... 128s Setting up python3-cairo (1.26.1-2) ... 128s Setting up python3-rlpycairo (0.3.0-3) ... 128s Setting up python3-reportlab (4.2.5-1) ... 129s Processing triggers for libc-bin (2.40-1ubuntu3) ... 129s Processing triggers for man-db (2.12.1-3) ... 129s Processing triggers for sgml-base (1.31) ... 129s Setting up w3c-sgml-lib (1.3-3) ... 149s Setting up python3-biopython (1.84+dfsg-4) ... 150s Setting up seqmagick (0.8.6-3) ... 150s Setting up autopkgtest-satdep (0) ... 152s (Reading database ... 58823 files and directories currently installed.) 152s Removing autopkgtest-satdep (0) ... 152s autopkgtest [16:23:46]: test run-unit-test: [----------------------- 153s ++ find examples/ -name '*.sh' 153s + for f in `find examples/ -name '*.sh'` 153s ++ dirname examples/apply-function/run_filter.sh 153s + cd examples/apply-function 153s ++ basename examples/apply-function/run_filter.sh 153s + /bin/bash run_filter.sh 153s /tmp/autopkgtest.KIeWTB/autopkgtest_tmp 153s + cd - 153s + for f in `find examples/ -name '*.sh'` 153s ++ dirname examples/include-from-file/do_filter.sh 153s + cd examples/include-from-file 153s ++ basename examples/include-from-file/do_filter.sh 153s + /bin/bash do_filter.sh 153s + cd - 153s + echo PASS 153s /tmp/autopkgtest.KIeWTB/autopkgtest_tmp 153s PASS 153s autopkgtest [16:23:47]: test run-unit-test: -----------------------] 154s autopkgtest [16:23:48]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 154s run-unit-test PASS 154s autopkgtest [16:23:48]: test pybuild-autopkgtest: preparing testbed 155s Reading package lists... 155s Building dependency tree... 155s Reading state information... 156s Starting pkgProblemResolver with broken count: 0 156s Starting 2 pkgProblemResolver with broken count: 0 156s Done 156s The following additional packages will be installed: 156s autoconf automake autopoint autotools-dev build-essential cpp cpp-14 156s cpp-14-s390x-linux-gnu cpp-s390x-linux-gnu debhelper debugedit dh-autoreconf 156s dh-python dh-strip-nondeterminism dwz g++ g++-14 g++-14-s390x-linux-gnu 156s g++-s390x-linux-gnu gcc gcc-14 gcc-14-s390x-linux-gnu gcc-s390x-linux-gnu 156s gettext intltool-debian libarchive-zip-perl libasan8 libcc1-0 156s libdebhelper-perl libfile-stripnondeterminism-perl libgcc-14-dev libisl23 156s libitm1 libmpc3 libpython3.13-minimal libpython3.13-stdlib libstdc++-14-dev 156s libtool libubsan1 m4 po-debconf pybuild-plugin-autopkgtest python3-all 156s python3-iniconfig python3-packaging python3-pluggy python3-pytest python3.13 156s python3.13-minimal 156s Suggested packages: 156s autoconf-archive gnu-standards autoconf-doc cpp-doc gcc-14-locales 156s cpp-14-doc dh-make flit python3-build python3-installer python3-wheel 156s gcc-14-doc gcc-multilib manpages-dev flex bison gdb gcc-doc 156s gdb-s390x-linux-gnu gettext-doc libasprintf-dev libgettextpo-dev 156s libstdc++-14-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc 156s libmail-box-perl python3.13-venv python3.13-doc binfmt-support 156s Recommended packages: 156s libarchive-cpio-perl libltdl-dev libmail-sendmail-perl 156s The following NEW packages will be installed: 156s autoconf automake autopkgtest-satdep autopoint autotools-dev build-essential 156s cpp cpp-14 cpp-14-s390x-linux-gnu cpp-s390x-linux-gnu debhelper debugedit 156s dh-autoreconf dh-python dh-strip-nondeterminism dwz g++ g++-14 156s g++-14-s390x-linux-gnu g++-s390x-linux-gnu gcc gcc-14 gcc-14-s390x-linux-gnu 156s gcc-s390x-linux-gnu gettext intltool-debian libarchive-zip-perl libasan8 156s libcc1-0 libdebhelper-perl libfile-stripnondeterminism-perl libgcc-14-dev 156s libisl23 libitm1 libmpc3 libpython3.13-minimal libpython3.13-stdlib 156s libstdc++-14-dev libtool libubsan1 m4 po-debconf pybuild-plugin-autopkgtest 156s python3-all python3-iniconfig python3-packaging python3-pluggy 156s python3-pytest python3.13 python3.13-minimal 156s 0 upgraded, 50 newly installed, 0 to remove and 0 not upgraded. 156s Need to get 59.4 MB/59.4 MB of archives. 156s After this operation, 192 MB of additional disk space will be used. 156s Get:1 /tmp/autopkgtest.KIeWTB/2-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [792 B] 156s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x libpython3.13-minimal s390x 3.13.0-2 [877 kB] 156s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x python3.13-minimal s390x 3.13.0-2 [2172 kB] 156s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x m4 s390x 1.4.19-4build1 [256 kB] 156s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x autoconf all 2.72-3 [382 kB] 157s Get:6 http://ftpmaster.internal/ubuntu plucky/main s390x autotools-dev all 20220109.1 [44.9 kB] 157s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x automake all 1:1.16.5-1.3ubuntu1 [558 kB] 157s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x autopoint all 0.22.5-2 [616 kB] 157s Get:9 http://ftpmaster.internal/ubuntu plucky/main s390x libisl23 s390x 0.27-1 [704 kB] 157s Get:10 http://ftpmaster.internal/ubuntu plucky/main s390x libmpc3 s390x 1.3.1-1build2 [57.8 kB] 157s Get:11 http://ftpmaster.internal/ubuntu plucky/main s390x cpp-14-s390x-linux-gnu s390x 14.2.0-8ubuntu1 [9570 kB] 157s Get:12 http://ftpmaster.internal/ubuntu plucky/main s390x cpp-14 s390x 14.2.0-8ubuntu1 [1026 B] 157s Get:13 http://ftpmaster.internal/ubuntu plucky/main s390x cpp-s390x-linux-gnu s390x 4:14.1.0-2ubuntu1 [5452 B] 157s Get:14 http://ftpmaster.internal/ubuntu plucky/main s390x cpp s390x 4:14.1.0-2ubuntu1 [22.4 kB] 157s Get:15 http://ftpmaster.internal/ubuntu plucky/main s390x libcc1-0 s390x 14.2.0-8ubuntu1 [50.6 kB] 157s Get:16 http://ftpmaster.internal/ubuntu plucky/main s390x libitm1 s390x 14.2.0-8ubuntu1 [30.9 kB] 157s Get:17 http://ftpmaster.internal/ubuntu plucky/main s390x libasan8 s390x 14.2.0-8ubuntu1 [2963 kB] 157s Get:18 http://ftpmaster.internal/ubuntu plucky/main s390x libubsan1 s390x 14.2.0-8ubuntu1 [1184 kB] 157s Get:19 http://ftpmaster.internal/ubuntu plucky/main s390x libgcc-14-dev s390x 14.2.0-8ubuntu1 [1037 kB] 157s Get:20 http://ftpmaster.internal/ubuntu plucky/main s390x gcc-14-s390x-linux-gnu s390x 14.2.0-8ubuntu1 [18.7 MB] 157s Get:21 http://ftpmaster.internal/ubuntu plucky/main s390x gcc-14 s390x 14.2.0-8ubuntu1 [518 kB] 158s Get:22 http://ftpmaster.internal/ubuntu plucky/main s390x gcc-s390x-linux-gnu s390x 4:14.1.0-2ubuntu1 [1204 B] 158s Get:23 http://ftpmaster.internal/ubuntu plucky/main s390x gcc s390x 4:14.1.0-2ubuntu1 [4996 B] 158s Get:24 http://ftpmaster.internal/ubuntu plucky/main s390x libstdc++-14-dev s390x 14.2.0-8ubuntu1 [2608 kB] 158s Get:25 http://ftpmaster.internal/ubuntu plucky/main s390x g++-14-s390x-linux-gnu s390x 14.2.0-8ubuntu1 [11.0 MB] 158s Get:26 http://ftpmaster.internal/ubuntu plucky/main s390x g++-14 s390x 14.2.0-8ubuntu1 [19.9 kB] 158s Get:27 http://ftpmaster.internal/ubuntu plucky/main s390x g++-s390x-linux-gnu s390x 4:14.1.0-2ubuntu1 [956 B] 158s Get:28 http://ftpmaster.internal/ubuntu plucky/main s390x g++ s390x 4:14.1.0-2ubuntu1 [1076 B] 158s Get:29 http://ftpmaster.internal/ubuntu plucky/main s390x build-essential s390x 12.10ubuntu1 [4930 B] 158s Get:30 http://ftpmaster.internal/ubuntu plucky/main s390x libdebhelper-perl all 13.20ubuntu1 [94.2 kB] 158s Get:31 http://ftpmaster.internal/ubuntu plucky/main s390x libtool all 2.4.7-7build1 [166 kB] 158s Get:32 http://ftpmaster.internal/ubuntu plucky/main s390x dh-autoreconf all 20 [16.1 kB] 158s Get:33 http://ftpmaster.internal/ubuntu plucky/main s390x libarchive-zip-perl all 1.68-1 [90.2 kB] 158s Get:34 http://ftpmaster.internal/ubuntu plucky/main s390x libfile-stripnondeterminism-perl all 1.14.0-1 [20.1 kB] 158s Get:35 http://ftpmaster.internal/ubuntu plucky/main s390x dh-strip-nondeterminism all 1.14.0-1 [5058 B] 158s Get:36 http://ftpmaster.internal/ubuntu plucky/main s390x debugedit s390x 1:5.1-1 [49.9 kB] 158s Get:37 http://ftpmaster.internal/ubuntu plucky/main s390x dwz s390x 0.15-1build6 [122 kB] 158s Get:38 http://ftpmaster.internal/ubuntu plucky/main s390x gettext s390x 0.22.5-2 [996 kB] 158s Get:39 http://ftpmaster.internal/ubuntu plucky/main s390x intltool-debian all 0.35.0+20060710.6 [23.2 kB] 158s Get:40 http://ftpmaster.internal/ubuntu plucky/main s390x po-debconf all 1.0.21+nmu1 [233 kB] 158s Get:41 http://ftpmaster.internal/ubuntu plucky/main s390x debhelper all 13.20ubuntu1 [893 kB] 158s Get:42 http://ftpmaster.internal/ubuntu plucky/universe s390x dh-python all 6.20241024 [112 kB] 158s Get:43 http://ftpmaster.internal/ubuntu plucky/main s390x libpython3.13-stdlib s390x 3.13.0-2 [2086 kB] 158s Get:44 http://ftpmaster.internal/ubuntu plucky/universe s390x pybuild-plugin-autopkgtest all 6.20241024 [1746 B] 158s Get:45 http://ftpmaster.internal/ubuntu plucky/main s390x python3.13 s390x 3.13.0-2 [719 kB] 158s Get:46 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-all s390x 3.12.7-1 [890 B] 158s Get:47 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-iniconfig all 1.1.1-2 [6024 B] 158s Get:48 http://ftpmaster.internal/ubuntu plucky/main s390x python3-packaging all 24.1-1 [41.4 kB] 158s Get:49 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pluggy all 1.5.0-1 [21.0 kB] 158s Get:50 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pytest all 8.3.3-1 [251 kB] 158s Fetched 59.4 MB in 2s (24.6 MB/s) 158s Selecting previously unselected package libpython3.13-minimal:s390x. 158s (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 ... 58823 files and directories currently installed.) 158s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_s390x.deb ... 158s Unpacking libpython3.13-minimal:s390x (3.13.0-2) ... 158s Selecting previously unselected package python3.13-minimal. 158s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_s390x.deb ... 159s Unpacking python3.13-minimal (3.13.0-2) ... 159s Selecting previously unselected package m4. 159s Preparing to unpack .../02-m4_1.4.19-4build1_s390x.deb ... 159s Unpacking m4 (1.4.19-4build1) ... 159s Selecting previously unselected package autoconf. 159s Preparing to unpack .../03-autoconf_2.72-3_all.deb ... 159s Unpacking autoconf (2.72-3) ... 159s Selecting previously unselected package autotools-dev. 159s Preparing to unpack .../04-autotools-dev_20220109.1_all.deb ... 159s Unpacking autotools-dev (20220109.1) ... 159s Selecting previously unselected package automake. 159s Preparing to unpack .../05-automake_1%3a1.16.5-1.3ubuntu1_all.deb ... 159s Unpacking automake (1:1.16.5-1.3ubuntu1) ... 159s Selecting previously unselected package autopoint. 159s Preparing to unpack .../06-autopoint_0.22.5-2_all.deb ... 159s Unpacking autopoint (0.22.5-2) ... 159s Selecting previously unselected package libisl23:s390x. 159s Preparing to unpack .../07-libisl23_0.27-1_s390x.deb ... 159s Unpacking libisl23:s390x (0.27-1) ... 159s Selecting previously unselected package libmpc3:s390x. 159s Preparing to unpack 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libcc1-0:s390x (14.2.0-8ubuntu1) ... 159s Selecting previously unselected package libitm1:s390x. 159s Preparing to unpack .../14-libitm1_14.2.0-8ubuntu1_s390x.deb ... 159s Unpacking libitm1:s390x (14.2.0-8ubuntu1) ... 159s Selecting previously unselected package libasan8:s390x. 159s Preparing to unpack .../15-libasan8_14.2.0-8ubuntu1_s390x.deb ... 159s Unpacking libasan8:s390x (14.2.0-8ubuntu1) ... 159s Selecting previously unselected package libubsan1:s390x. 159s Preparing to unpack .../16-libubsan1_14.2.0-8ubuntu1_s390x.deb ... 159s Unpacking libubsan1:s390x (14.2.0-8ubuntu1) ... 159s Selecting previously unselected package libgcc-14-dev:s390x. 159s Preparing to unpack .../17-libgcc-14-dev_14.2.0-8ubuntu1_s390x.deb ... 159s Unpacking libgcc-14-dev:s390x (14.2.0-8ubuntu1) ... 159s Selecting previously unselected package gcc-14-s390x-linux-gnu. 159s Preparing to unpack .../18-gcc-14-s390x-linux-gnu_14.2.0-8ubuntu1_s390x.deb ... 159s Unpacking gcc-14-s390x-linux-gnu (14.2.0-8ubuntu1) 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unselected package g++-14. 160s Preparing to unpack .../24-g++-14_14.2.0-8ubuntu1_s390x.deb ... 160s Unpacking g++-14 (14.2.0-8ubuntu1) ... 160s Selecting previously unselected package g++-s390x-linux-gnu. 160s Preparing to unpack .../25-g++-s390x-linux-gnu_4%3a14.1.0-2ubuntu1_s390x.deb ... 160s Unpacking g++-s390x-linux-gnu (4:14.1.0-2ubuntu1) ... 160s Selecting previously unselected package g++. 160s Preparing to unpack .../26-g++_4%3a14.1.0-2ubuntu1_s390x.deb ... 160s Unpacking g++ (4:14.1.0-2ubuntu1) ... 160s Selecting previously unselected package build-essential. 160s Preparing to unpack .../27-build-essential_12.10ubuntu1_s390x.deb ... 160s Unpacking build-essential (12.10ubuntu1) ... 160s Selecting previously unselected package libdebhelper-perl. 160s Preparing to unpack .../28-libdebhelper-perl_13.20ubuntu1_all.deb ... 160s Unpacking libdebhelper-perl (13.20ubuntu1) ... 160s Selecting previously unselected package libtool. 160s Preparing to unpack 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package python3-packaging. 160s Preparing to unpack .../46-python3-packaging_24.1-1_all.deb ... 160s Unpacking python3-packaging (24.1-1) ... 160s Selecting previously unselected package python3-pluggy. 160s Preparing to unpack .../47-python3-pluggy_1.5.0-1_all.deb ... 160s Unpacking python3-pluggy (1.5.0-1) ... 160s Selecting previously unselected package python3-pytest. 160s Preparing to unpack .../48-python3-pytest_8.3.3-1_all.deb ... 160s Unpacking python3-pytest (8.3.3-1) ... 160s Selecting previously unselected package autopkgtest-satdep. 160s Preparing to unpack .../49-2-autopkgtest-satdep.deb ... 160s Unpacking autopkgtest-satdep (0) ... 160s Setting up dh-python (6.20241024) ... 160s Setting up python3-iniconfig (1.1.1-2) ... 160s Setting up gettext (0.22.5-2) ... 160s Setting up libarchive-zip-perl (1.68-1) ... 160s Setting up libdebhelper-perl (13.20ubuntu1) ... 160s Setting up m4 (1.4.19-4build1) ... 160s Setting up intltool-debian (0.35.0+20060710.6) ... 160s Setting up libpython3.13-minimal:s390x (3.13.0-2) ... 160s Setting up autotools-dev (20220109.1) ... 160s Setting up python3-packaging (24.1-1) ... 160s Setting up libmpc3:s390x (1.3.1-1build2) ... 160s Setting up autopoint (0.22.5-2) ... 160s Setting up autoconf (2.72-3) ... 160s Setting up python3-pluggy (1.5.0-1) ... 161s Setting up libubsan1:s390x (14.2.0-8ubuntu1) ... 161s Setting up dwz (0.15-1build6) ... 161s Setting up libasan8:s390x (14.2.0-8ubuntu1) ... 161s Setting up debugedit (1:5.1-1) ... 161s Setting up python3.13-minimal (3.13.0-2) ... 161s Setting up libisl23:s390x (0.27-1) ... 161s Setting up libpython3.13-stdlib:s390x (3.13.0-2) ... 161s Setting up libcc1-0:s390x (14.2.0-8ubuntu1) ... 161s Setting up libitm1:s390x (14.2.0-8ubuntu1) ... 161s Setting up automake (1:1.16.5-1.3ubuntu1) ... 161s update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode 161s Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... 161s Setting up python3.13 (3.13.0-2) ... 162s Setting up python3-pytest (8.3.3-1) ... 163s Setting up po-debconf (1.0.21+nmu1) ... 163s Setting up python3-all (3.12.7-1) ... 163s Setting up cpp-14-s390x-linux-gnu (14.2.0-8ubuntu1) ... 163s Setting up cpp-14 (14.2.0-8ubuntu1) ... 163s Setting up dh-strip-nondeterminism (1.14.0-1) ... 163s Setting up libgcc-14-dev:s390x (14.2.0-8ubuntu1) ... 163s Setting up libstdc++-14-dev:s390x (14.2.0-8ubuntu1) ... 163s Setting up cpp-s390x-linux-gnu (4:14.1.0-2ubuntu1) ... 163s Setting up gcc-14-s390x-linux-gnu (14.2.0-8ubuntu1) ... 163s Setting up gcc-s390x-linux-gnu (4:14.1.0-2ubuntu1) ... 163s Setting up g++-14-s390x-linux-gnu (14.2.0-8ubuntu1) ... 163s Setting up cpp (4:14.1.0-2ubuntu1) ... 163s Setting up g++-s390x-linux-gnu (4:14.1.0-2ubuntu1) ... 163s Setting up gcc-14 (14.2.0-8ubuntu1) ... 163s Setting up g++-14 (14.2.0-8ubuntu1) ... 163s Setting up libtool (2.4.7-7build1) ... 163s Setting up gcc (4:14.1.0-2ubuntu1) ... 163s Setting up dh-autoreconf (20) ... 163s Setting up g++ (4:14.1.0-2ubuntu1) ... 163s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 163s Setting up build-essential (12.10ubuntu1) ... 163s Setting up debhelper (13.20ubuntu1) ... 163s Setting up pybuild-plugin-autopkgtest (6.20241024) ... 163s Setting up autopkgtest-satdep (0) ... 163s Processing triggers for systemd (256.5-2ubuntu4) ... 163s Processing triggers for man-db (2.12.1-3) ... 163s Processing triggers for install-info (7.1.1-1) ... 163s Processing triggers for libc-bin (2.40-1ubuntu3) ... 165s (Reading database ... 61980 files and directories currently installed.) 165s Removing autopkgtest-satdep (0) ... 165s autopkgtest [16:23:59]: test pybuild-autopkgtest: pybuild-autopkgtest 165s autopkgtest [16:23:59]: test pybuild-autopkgtest: [----------------------- 165s # Pull test items that are otherwise uncaught by pybuild-autodep8. 166s mkdir -p ../../autopkgtest_tmp/build/seqmagick 166s cp -r /usr/lib/python3/dist-packages/seqmagick/test \ 166s ../../autopkgtest_tmp/build/seqmagick 166s pybuild-autopkgtest 166s I: pybuild base:311: cd /tmp/autopkgtest.KIeWTB/autopkgtest_tmp/build; python3.13 -m pytest 166s ============================= test session starts ============================== 166s platform linux -- Python 3.13.0, pytest-8.3.3, pluggy-1.5.0 166s rootdir: /tmp/autopkgtest.KIeWTB/autopkgtest_tmp/build 166s plugins: typeguard-4.4.1 166s collected 54 items / 4 errors 166s 166s ==================================== ERRORS ==================================== 166s _____ ERROR collecting seqmagick/test/test_subcommands_backtrans_align.py ______ 166s ImportError while importing test module '/tmp/autopkgtest.KIeWTB/autopkgtest_tmp/build/seqmagick/test/test_subcommands_backtrans_align.py'. 166s Hint: make sure your test modules/packages have valid Python names. 166s Traceback: 166s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 166s return _bootstrap._gcd_import(name[level:], package, level) 166s seqmagick/test/test_subcommands_backtrans_align.py:7: in 166s from seqmagick.subcommands import backtrans_align 166s /usr/lib/python3/dist-packages/seqmagick/subcommands/backtrans_align.py:15: in 166s from Bio import SeqIO 166s /usr/lib/python3/dist-packages/Bio/SeqIO/__init__.py:401: in 166s from Bio.SeqIO import TwoBitIO 166s /usr/lib/python3/dist-packages/Bio/SeqIO/TwoBitIO.py:80: in 166s raise MissingPythonDependencyError( 166s E Bio.MissingPythonDependencyError: Install NumPy if you want to use Bio.SeqIO with TwoBit files.See http://www.numpy.org/ 166s _________ ERROR collecting seqmagick/test/test_subcommands_convert.py __________ 166s ImportError while importing test module '/tmp/autopkgtest.KIeWTB/autopkgtest_tmp/build/seqmagick/test/test_subcommands_convert.py'. 166s Hint: make sure your test modules/packages have valid Python names. 166s Traceback: 166s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 166s return _bootstrap._gcd_import(name[level:], package, level) 166s seqmagick/test/test_subcommands_convert.py:10: in 166s from seqmagick.subcommands import convert 166s /usr/lib/python3/dist-packages/seqmagick/subcommands/convert.py:9: in 166s from Bio import SeqIO 166s /usr/lib/python3/dist-packages/Bio/SeqIO/__init__.py:401: in 166s from Bio.SeqIO import TwoBitIO 166s /usr/lib/python3/dist-packages/Bio/SeqIO/TwoBitIO.py:80: in 166s raise MissingPythonDependencyError( 166s E Bio.MissingPythonDependencyError: Install NumPy if you want to use Bio.SeqIO with TwoBit files.See http://www.numpy.org/ 166s ______ ERROR collecting seqmagick/test/test_subcommands_quality_filter.py ______ 166s ImportError while importing test module '/tmp/autopkgtest.KIeWTB/autopkgtest_tmp/build/seqmagick/test/test_subcommands_quality_filter.py'. 166s Hint: make sure your test modules/packages have valid Python names. 166s Traceback: 166s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 166s return _bootstrap._gcd_import(name[level:], package, level) 166s seqmagick/test/test_subcommands_quality_filter.py:8: in 166s from seqmagick.subcommands import quality_filter 166s /usr/lib/python3/dist-packages/seqmagick/subcommands/quality_filter.py:13: in 166s from Bio import SeqIO 166s /usr/lib/python3/dist-packages/Bio/SeqIO/__init__.py:401: in 166s from Bio.SeqIO import TwoBitIO 166s /usr/lib/python3/dist-packages/Bio/SeqIO/TwoBitIO.py:80: in 166s raise MissingPythonDependencyError( 166s E Bio.MissingPythonDependencyError: Install NumPy if you want to use Bio.SeqIO with TwoBit files.See http://www.numpy.org/ 166s ______________ ERROR collecting seqmagick/test/test_transform.py _______________ 166s ImportError while importing test module '/tmp/autopkgtest.KIeWTB/autopkgtest_tmp/build/seqmagick/test/test_transform.py'. 166s Hint: make sure your test modules/packages have valid Python names. 166s Traceback: 166s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 166s return _bootstrap._gcd_import(name[level:], package, level) 166s seqmagick/test/test_transform.py:10: in 166s from Bio import SeqIO 166s /usr/lib/python3/dist-packages/Bio/SeqIO/__init__.py:401: in 166s from Bio.SeqIO import TwoBitIO 166s /usr/lib/python3/dist-packages/Bio/SeqIO/TwoBitIO.py:80: in 166s raise MissingPythonDependencyError( 166s E Bio.MissingPythonDependencyError: Install NumPy if you want to use Bio.SeqIO with TwoBit files.See http://www.numpy.org/ 166s =========================== short test summary info ============================ 166s ERROR seqmagick/test/test_subcommands_backtrans_align.py 166s ERROR seqmagick/test/test_subcommands_convert.py 166s ERROR seqmagick/test/test_subcommands_quality_filter.py 166s ERROR seqmagick/test/test_transform.py 166s !!!!!!!!!!!!!!!!!!! Interrupted: 4 errors during collection !!!!!!!!!!!!!!!!!!!! 166s ============================== 4 errors in 0.43s =============================== 166s E: pybuild pybuild:389: test: plugin distutils failed with: exit code=2: cd /tmp/autopkgtest.KIeWTB/autopkgtest_tmp/build; python3.13 -m pytest 166s I: pybuild base:311: cd /tmp/autopkgtest.KIeWTB/autopkgtest_tmp/build; python3.12 -m pytest 167s ============================= test session starts ============================== 167s platform linux -- Python 3.12.7, pytest-8.3.3, pluggy-1.5.0 167s rootdir: /tmp/autopkgtest.KIeWTB/autopkgtest_tmp/build 167s plugins: typeguard-4.4.1 167s collected 154 items 167s 167s seqmagick/test/integration/test_convert.py .ss.............. [ 11%] 167s seqmagick/test/integration/test_extract_ids.py ..ss.. [ 14%] 167s seqmagick/test/integration/test_info.py ...s [ 17%] 167s seqmagick/test/integration/test_mogrify.py .s. [ 19%] 167s seqmagick/test/test_subcommands_backtrans_align.py ......... [ 25%] 167s seqmagick/test/test_subcommands_common.py ..................s..... [ 40%] 167s seqmagick/test/test_subcommands_convert.py ...... [ 44%] 167s seqmagick/test/test_subcommands_quality_filter.py ...................... [ 59%] 167s .... [ 61%] 167s seqmagick/test/test_transform.py ....................................... [ 87%] 167s .................... [100%] 167s 167s ======================== 147 passed, 7 skipped in 0.48s ======================== 167s pybuild-autopkgtest: error: pybuild --autopkgtest --test-pytest -i python{version} -p "3.13 3.12" returned exit code 13 167s make: *** [/tmp/3UsC3ZbQYA/run:4: pybuild-autopkgtest] Error 25 167s pybuild-autopkgtest: error: /tmp/3UsC3ZbQYA/run pybuild-autopkgtest returned exit code 2 167s autopkgtest [16:24:01]: test pybuild-autopkgtest: -----------------------] 168s autopkgtest [16:24:02]: test pybuild-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 168s pybuild-autopkgtest FAIL non-zero exit status 25 168s autopkgtest [16:24:02]: @@@@@@@@@@@@@@@@@@@@ summary 168s run-unit-test PASS 168s pybuild-autopkgtest FAIL non-zero exit status 25 180s nova [W] Using flock in prodstack6-s390x 180s flock: timeout while waiting to get lock 180s Creating nova instance adt-plucky-s390x-seqmagick-20241113-162114-juju-7f2275-prod-proposed-migration-environment-15-4fa7f0a2-0a14-4d1c-82ad-4169ed525944 from image adt/ubuntu-plucky-s390x-server-20241113.img (UUID e740277e-1f72-40ae-bfbe-46030537c71c)...