0s autopkgtest [21:28:36]: starting date and time: 2024-11-14 21:28:36+0000 0s autopkgtest [21:28:36]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [21:28:36]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.ezqfzeer/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python-biopython --apt-upgrade python-biopython --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=python-biopython/1.84+dfsg-4build1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-s390x --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-s390x-19.secgroup --name adt-plucky-s390x-python-biopython-20241114-212836-juju-7f2275-prod-proposed-migration-environment-20-d42c1d7d-38b6-4c1d-8151-7d6a4ad1d9b6 --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/ 111s autopkgtest [21:30:27]: testbed dpkg architecture: s390x 112s autopkgtest [21:30:28]: testbed apt version: 2.9.8 112s autopkgtest [21:30:28]: @@@@@@@@@@@@@@@@@@@@ test bed setup 112s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 113s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [106 kB] 113s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [1037 kB] 113s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [16.1 kB] 113s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 113s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x Packages [126 kB] 113s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x Packages [745 kB] 113s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse s390x Packages [4648 B] 113s Fetched 2117 kB in 1s (2501 kB/s) 113s Reading package lists... 115s Reading package lists... 115s Building dependency tree... 115s Reading state information... 115s Calculating upgrade... 116s The following packages will be upgraded: 116s libcap-ng0 pastebinit python3-systemd 116s 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 116s Need to get 77.8 kB of archives. 116s After this operation, 123 kB of additional disk space will be used. 116s Get:1 http://ftpmaster.internal/ubuntu plucky/main s390x libcap-ng0 s390x 0.8.5-3build1 [15.9 kB] 116s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x pastebinit all 1.7.1-1 [14.9 kB] 116s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x python3-systemd s390x 235-1build5 [46.9 kB] 116s Fetched 77.8 kB in 0s (224 kB/s) 116s (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 ... 55511 files and directories currently installed.) 116s Preparing to unpack .../libcap-ng0_0.8.5-3build1_s390x.deb ... 116s Unpacking libcap-ng0:s390x (0.8.5-3build1) over (0.8.5-1) ... 116s Setting up libcap-ng0:s390x (0.8.5-3build1) ... 116s (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 ... 55511 files and directories currently installed.) 116s Preparing to unpack .../pastebinit_1.7.1-1_all.deb ... 116s Unpacking pastebinit (1.7.1-1) over (1.7.0-1) ... 116s Preparing to unpack .../python3-systemd_235-1build5_s390x.deb ... 116s Unpacking python3-systemd (235-1build5) over (235-1build4) ... 116s Setting up pastebinit (1.7.1-1) ... 116s Setting up python3-systemd (235-1build5) ... 117s Processing triggers for man-db (2.12.1-3) ... 117s Processing triggers for libc-bin (2.40-1ubuntu3) ... 117s Reading package lists... 117s Building dependency tree... 117s Reading state information... 117s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 118s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 118s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 118s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 118s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 119s Reading package lists... 119s Reading package lists... 119s Building dependency tree... 119s Reading state information... 119s Calculating upgrade... 119s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 119s Reading package lists... 119s Building dependency tree... 119s Reading state information... 119s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 122s autopkgtest [21:30:38]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP Mon Sep 16 12:49:35 UTC 2024 122s autopkgtest [21:30:38]: @@@@@@@@@@@@@@@@@@@@ apt-source python-biopython 125s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/universe python-biopython 1.84+dfsg-4build1 (dsc) [3412 B] 125s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe python-biopython 1.84+dfsg-4build1 (tar) [14.6 MB] 125s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe python-biopython 1.84+dfsg-4build1 (diff) [42.9 kB] 125s gpgv: Signature made Thu Nov 14 18:31:06 2024 UTC 125s gpgv: using RSA key 568BF22A66337CBFC9A6B9B72C83DBC8E9BD0E37 125s gpgv: Can't check signature: No public key 125s dpkg-source: warning: cannot verify inline signature for ./python-biopython_1.84+dfsg-4build1.dsc: no acceptable signature found 126s autopkgtest [21:30:42]: testing package python-biopython version 1.84+dfsg-4build1 126s autopkgtest [21:30:42]: build not needed 132s autopkgtest [21:30:48]: test dependencies: preparing testbed 137s Reading package lists... 137s Building dependency tree... 137s Reading state information... 137s Starting pkgProblemResolver with broken count: 0 137s Starting 2 pkgProblemResolver with broken count: 0 137s Done 139s The following additional packages will be installed: 139s fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 139s libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 libfreetype6 139s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libimagequant0 libjbig0 139s libjpeg-turbo8 libjpeg8 libjs-jquery libjs-sphinxdoc libjs-underscore 139s liblapack3 liblcms2-2 libopenjp2-7 libpixman-1-0 libraqm0 libsharpyuv0 139s libtiff6 libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 139s libxrender1 python-biopython-doc python3-all python3-biopython 139s python3-biopython-sql python3-cairo python3-freetype python3-numpy 139s python3-pil python3-reportlab python3-rlpycairo sgml-base w3c-sgml-lib 139s x11-common xfonts-encodings xfonts-utils xml-core 139s Suggested packages: 139s fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre liblcms2-utils 139s python3-tk bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle3 139s phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf 139s python3-rdflib python3-psycopg2 python3-scipy raxml samtools t-coffee wise 139s gcc gfortran python-numpy-doc python3-dev python3-pytest python-pil-doc 139s pdf-viewer python3-egenix-mxtexttools python-reportlab-doc rl-accel 139s rl-renderpm sgml-base-doc debhelper 139s Recommended packages: 139s javascript-common ncbi-blast+ python3-olefile fonts-dejavu-extra 139s The following NEW packages will be installed: 139s autopkgtest-satdep fontconfig-config fonts-dejavu-core fonts-dejavu-mono 139s fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 139s libfreetype6 libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b 139s libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-sphinxdoc 139s libjs-underscore liblapack3 liblcms2-2 libopenjp2-7 libpixman-1-0 libraqm0 139s libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 139s libxcb-shm0 libxrender1 python-biopython-doc python3-all python3-biopython 139s python3-biopython-sql python3-cairo python3-freetype python3-numpy 139s python3-pil python3-reportlab python3-rlpycairo sgml-base w3c-sgml-lib 139s x11-common xfonts-encodings xfonts-utils xml-core 139s 0 upgraded, 51 newly installed, 0 to remove and 0 not upgraded. 139s Need to get 46.9 MB/46.9 MB of archives. 139s After this operation, 124 MB of additional disk space will be used. 139s Get:1 /tmp/autopkgtest.r2ndTA/1-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [744 B] 139s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x sgml-base all 1.31 [11.4 kB] 139s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-mono all 2.37-8 [502 kB] 139s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-core all 2.37-8 [835 kB] 139s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x libfontenc1 s390x 1:1.1.8-1build1 [14.8 kB] 139s Get:6 http://ftpmaster.internal/ubuntu plucky/main s390x libfreetype6 s390x 2.13.3+dfsg-1 [431 kB] 139s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x x11-common all 1:7.7+23ubuntu3 [21.7 kB] 139s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 139s Get:9 http://ftpmaster.internal/ubuntu plucky/main s390x xfonts-utils s390x 1:7.7+7 [101 kB] 139s Get:10 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-urw-base35 all 20200910-8 [11.0 MB] 139s Get:11 http://ftpmaster.internal/ubuntu plucky/main s390x fontconfig-config s390x 2.15.0-1.1ubuntu2 [37.4 kB] 139s Get:12 http://ftpmaster.internal/ubuntu plucky/main s390x libblas3 s390x 3.12.0-3build2 [238 kB] 139s Get:13 http://ftpmaster.internal/ubuntu plucky/main s390x libfontconfig1 s390x 2.15.0-1.1ubuntu2 [150 kB] 139s Get:14 http://ftpmaster.internal/ubuntu plucky/main s390x libpixman-1-0 s390x 0.44.0-3 [201 kB] 139s Get:15 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-render0 s390x 1.17.0-2 [17.0 kB] 139s Get:16 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-shm0 s390x 1.17.0-2 [5862 B] 139s Get:17 http://ftpmaster.internal/ubuntu plucky/main s390x libxrender1 s390x 1:0.9.10-1.1build1 [20.4 kB] 139s Get:18 http://ftpmaster.internal/ubuntu plucky/main s390x libcairo2 s390x 1.18.2-2 [580 kB] 139s Get:19 http://ftpmaster.internal/ubuntu plucky/main s390x libdeflate0 s390x 1.22-1 [46.1 kB] 139s Get:20 http://ftpmaster.internal/ubuntu plucky/main s390x libgfortran5 s390x 14.2.0-8ubuntu1 [587 kB] 139s Get:21 http://ftpmaster.internal/ubuntu plucky/main s390x libgomp1 s390x 14.2.0-8ubuntu1 [151 kB] 139s Get:22 http://ftpmaster.internal/ubuntu plucky/main s390x libgraphite2-3 s390x 1.3.14-2ubuntu1 [79.8 kB] 139s Get:23 http://ftpmaster.internal/ubuntu plucky/main s390x libharfbuzz0b s390x 10.0.1-1 [536 kB] 139s Get:24 http://ftpmaster.internal/ubuntu plucky/main s390x libimagequant0 s390x 2.18.0-1build1 [43.3 kB] 139s Get:25 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu2 [150 kB] 139s Get:26 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B] 139s Get:27 http://ftpmaster.internal/ubuntu plucky/main s390x libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 139s Get:28 http://ftpmaster.internal/ubuntu plucky/main s390x libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 139s Get:29 http://ftpmaster.internal/ubuntu plucky/main s390x libjs-sphinxdoc all 7.4.7-4 [158 kB] 139s Get:30 http://ftpmaster.internal/ubuntu plucky/main s390x liblapack3 s390x 3.12.0-3build2 [2953 kB] 139s Get:31 http://ftpmaster.internal/ubuntu plucky/main s390x liblcms2-2 s390x 2.16-2 [175 kB] 139s Get:32 http://ftpmaster.internal/ubuntu plucky/main s390x libraqm0 s390x 0.10.1-1build1 [16.2 kB] 139s Get:33 http://ftpmaster.internal/ubuntu plucky/main s390x libsharpyuv0 s390x 1.4.0-0.1 [16.2 kB] 139s Get:34 http://ftpmaster.internal/ubuntu plucky/main s390x libjbig0 s390x 2.1-6.1ubuntu2 [33.1 kB] 139s Get:35 http://ftpmaster.internal/ubuntu plucky/main s390x libwebp7 s390x 1.4.0-0.1 [204 kB] 139s Get:36 http://ftpmaster.internal/ubuntu plucky/main s390x libtiff6 s390x 4.5.1+git230720-4ubuntu4 [217 kB] 139s Get:37 http://ftpmaster.internal/ubuntu plucky/main s390x libwebpdemux2 s390x 1.4.0-0.1 [12.2 kB] 139s Get:38 http://ftpmaster.internal/ubuntu plucky/main s390x libwebpmux3 s390x 1.4.0-0.1 [25.3 kB] 139s Get:39 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x python-biopython-doc all 1.84+dfsg-4build1 [18.1 MB] 139s Get:40 http://ftpmaster.internal/ubuntu plucky/main s390x python3-all s390x 3.12.6-0ubuntu1 [890 B] 139s Get:41 http://ftpmaster.internal/ubuntu plucky/main s390x python3-numpy s390x 1:1.26.4+ds-11build1 [4113 kB] 140s Get:42 http://ftpmaster.internal/ubuntu plucky/main s390x libopenjp2-7 s390x 2.5.0-2ubuntu1 [208 kB] 140s Get:43 http://ftpmaster.internal/ubuntu plucky/main s390x python3-pil s390x 10.4.0-1ubuntu1 [492 kB] 140s Get:44 http://ftpmaster.internal/ubuntu plucky/main s390x python3-cairo s390x 1.26.1-2 [119 kB] 140s Get:45 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-freetype all 2.5.1-1 [92.3 kB] 140s Get:46 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-rlpycairo all 0.3.0-3 [9130 B] 140s Get:47 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-reportlab all 4.2.5-1 [1107 kB] 140s Get:48 http://ftpmaster.internal/ubuntu plucky/main s390x xml-core all 0.19 [20.3 kB] 140s Get:49 http://ftpmaster.internal/ubuntu plucky/universe s390x w3c-sgml-lib all 1.3-3 [280 kB] 140s Get:50 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x python3-biopython s390x 1.84+dfsg-4build1 [1728 kB] 140s Get:51 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x python3-biopython-sql all 1.84+dfsg-4build1 [26.4 kB] 140s Fetched 46.9 MB in 2s (18.8 MB/s) 140s Selecting previously unselected package sgml-base. 140s (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 ... 55516 files and directories currently installed.) 140s Preparing to unpack .../00-sgml-base_1.31_all.deb ... 140s Unpacking sgml-base (1.31) ... 140s Selecting previously unselected package fonts-dejavu-mono. 140s Preparing to unpack .../01-fonts-dejavu-mono_2.37-8_all.deb ... 140s Unpacking fonts-dejavu-mono (2.37-8) ... 140s Selecting previously unselected package fonts-dejavu-core. 140s Preparing to unpack .../02-fonts-dejavu-core_2.37-8_all.deb ... 140s Unpacking fonts-dejavu-core (2.37-8) ... 140s Selecting previously unselected package libfontenc1:s390x. 140s Preparing to unpack .../03-libfontenc1_1%3a1.1.8-1build1_s390x.deb ... 140s Unpacking libfontenc1:s390x (1:1.1.8-1build1) ... 140s Selecting previously unselected package libfreetype6:s390x. 140s Preparing to unpack .../04-libfreetype6_2.13.3+dfsg-1_s390x.deb ... 140s Unpacking libfreetype6:s390x (2.13.3+dfsg-1) ... 140s Selecting previously unselected package x11-common. 140s Preparing to unpack .../05-x11-common_1%3a7.7+23ubuntu3_all.deb ... 140s Unpacking x11-common (1:7.7+23ubuntu3) ... 140s Selecting previously unselected package xfonts-encodings. 140s Preparing to unpack .../06-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 140s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 140s Selecting previously unselected package xfonts-utils. 140s Preparing to unpack .../07-xfonts-utils_1%3a7.7+7_s390x.deb ... 140s Unpacking xfonts-utils (1:7.7+7) ... 140s Selecting previously unselected package fonts-urw-base35. 140s Preparing to unpack .../08-fonts-urw-base35_20200910-8_all.deb ... 140s Unpacking fonts-urw-base35 (20200910-8) ... 140s Selecting previously unselected package fontconfig-config. 140s Preparing to unpack .../09-fontconfig-config_2.15.0-1.1ubuntu2_s390x.deb ... 140s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 140s Selecting previously unselected package libblas3:s390x. 140s Preparing to unpack .../10-libblas3_3.12.0-3build2_s390x.deb ... 140s Unpacking libblas3:s390x (3.12.0-3build2) ... 140s Selecting previously unselected package libfontconfig1:s390x. 140s Preparing to unpack .../11-libfontconfig1_2.15.0-1.1ubuntu2_s390x.deb ... 140s Unpacking libfontconfig1:s390x (2.15.0-1.1ubuntu2) ... 140s Selecting previously unselected package libpixman-1-0:s390x. 140s Preparing to unpack .../12-libpixman-1-0_0.44.0-3_s390x.deb ... 140s Unpacking libpixman-1-0:s390x (0.44.0-3) ... 140s Selecting previously unselected package libxcb-render0:s390x. 140s Preparing to unpack .../13-libxcb-render0_1.17.0-2_s390x.deb ... 140s Unpacking libxcb-render0:s390x (1.17.0-2) ... 140s Selecting previously unselected package libxcb-shm0:s390x. 140s Preparing to unpack .../14-libxcb-shm0_1.17.0-2_s390x.deb ... 140s Unpacking libxcb-shm0:s390x (1.17.0-2) ... 140s Selecting previously unselected package libxrender1:s390x. 140s Preparing to unpack .../15-libxrender1_1%3a0.9.10-1.1build1_s390x.deb ... 140s Unpacking libxrender1:s390x (1:0.9.10-1.1build1) ... 141s Selecting previously unselected package libcairo2:s390x. 141s Preparing to unpack .../16-libcairo2_1.18.2-2_s390x.deb ... 141s Unpacking libcairo2:s390x (1.18.2-2) ... 141s Selecting previously unselected package libdeflate0:s390x. 141s Preparing to unpack .../17-libdeflate0_1.22-1_s390x.deb ... 141s Unpacking libdeflate0:s390x (1.22-1) ... 141s Selecting previously unselected package libgfortran5:s390x. 141s Preparing to unpack .../18-libgfortran5_14.2.0-8ubuntu1_s390x.deb ... 141s Unpacking libgfortran5:s390x (14.2.0-8ubuntu1) ... 141s Selecting previously unselected package libgomp1:s390x. 141s Preparing to unpack .../19-libgomp1_14.2.0-8ubuntu1_s390x.deb ... 141s Unpacking libgomp1:s390x (14.2.0-8ubuntu1) ... 141s Selecting previously unselected package libgraphite2-3:s390x. 141s Preparing to unpack .../20-libgraphite2-3_1.3.14-2ubuntu1_s390x.deb ... 141s Unpacking libgraphite2-3:s390x (1.3.14-2ubuntu1) ... 141s Selecting previously unselected package libharfbuzz0b:s390x. 141s Preparing to unpack .../21-libharfbuzz0b_10.0.1-1_s390x.deb ... 141s Unpacking libharfbuzz0b:s390x (10.0.1-1) ... 141s Selecting previously unselected package libimagequant0:s390x. 141s Preparing to unpack .../22-libimagequant0_2.18.0-1build1_s390x.deb ... 141s Unpacking libimagequant0:s390x (2.18.0-1build1) ... 141s Selecting previously unselected package libjpeg-turbo8:s390x. 141s Preparing to unpack .../23-libjpeg-turbo8_2.1.5-2ubuntu2_s390x.deb ... 141s Unpacking libjpeg-turbo8:s390x (2.1.5-2ubuntu2) ... 141s Selecting previously unselected package libjpeg8:s390x. 141s Preparing to unpack .../24-libjpeg8_8c-2ubuntu11_s390x.deb ... 141s Unpacking libjpeg8:s390x (8c-2ubuntu11) ... 141s Selecting previously unselected package libjs-jquery. 141s Preparing to unpack .../25-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 141s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 141s Selecting previously unselected package libjs-underscore. 141s Preparing to unpack .../26-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 141s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 141s Selecting previously unselected package libjs-sphinxdoc. 141s Preparing to unpack .../27-libjs-sphinxdoc_7.4.7-4_all.deb ... 141s Unpacking libjs-sphinxdoc (7.4.7-4) ... 141s Selecting previously unselected package liblapack3:s390x. 141s Preparing to unpack .../28-liblapack3_3.12.0-3build2_s390x.deb ... 141s Unpacking liblapack3:s390x (3.12.0-3build2) ... 141s Selecting previously unselected package liblcms2-2:s390x. 141s Preparing to unpack .../29-liblcms2-2_2.16-2_s390x.deb ... 141s Unpacking liblcms2-2:s390x (2.16-2) ... 141s Selecting previously unselected package libraqm0:s390x. 141s Preparing to unpack .../30-libraqm0_0.10.1-1build1_s390x.deb ... 141s Unpacking libraqm0:s390x (0.10.1-1build1) ... 141s Selecting previously unselected package libsharpyuv0:s390x. 141s Preparing to unpack .../31-libsharpyuv0_1.4.0-0.1_s390x.deb ... 141s Unpacking libsharpyuv0:s390x (1.4.0-0.1) ... 141s Selecting previously unselected package libjbig0:s390x. 141s Preparing to unpack .../32-libjbig0_2.1-6.1ubuntu2_s390x.deb ... 141s Unpacking libjbig0:s390x (2.1-6.1ubuntu2) ... 141s Selecting previously unselected package libwebp7:s390x. 141s Preparing to unpack .../33-libwebp7_1.4.0-0.1_s390x.deb ... 141s Unpacking libwebp7:s390x (1.4.0-0.1) ... 141s Selecting previously unselected package libtiff6:s390x. 141s Preparing to unpack .../34-libtiff6_4.5.1+git230720-4ubuntu4_s390x.deb ... 141s Unpacking libtiff6:s390x (4.5.1+git230720-4ubuntu4) ... 141s Selecting previously unselected package libwebpdemux2:s390x. 141s Preparing to unpack .../35-libwebpdemux2_1.4.0-0.1_s390x.deb ... 141s Unpacking libwebpdemux2:s390x (1.4.0-0.1) ... 141s Selecting previously unselected package libwebpmux3:s390x. 141s Preparing to unpack .../36-libwebpmux3_1.4.0-0.1_s390x.deb ... 141s Unpacking libwebpmux3:s390x (1.4.0-0.1) ... 141s Selecting previously unselected package python-biopython-doc. 141s Preparing to unpack .../37-python-biopython-doc_1.84+dfsg-4build1_all.deb ... 141s Unpacking python-biopython-doc (1.84+dfsg-4build1) ... 141s Selecting previously unselected package python3-all. 141s Preparing to unpack .../38-python3-all_3.12.6-0ubuntu1_s390x.deb ... 141s Unpacking python3-all (3.12.6-0ubuntu1) ... 141s Selecting previously unselected package python3-numpy. 141s Preparing to unpack .../39-python3-numpy_1%3a1.26.4+ds-11build1_s390x.deb ... 141s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 141s Selecting previously unselected package libopenjp2-7:s390x. 141s Preparing to unpack .../40-libopenjp2-7_2.5.0-2ubuntu1_s390x.deb ... 141s Unpacking libopenjp2-7:s390x (2.5.0-2ubuntu1) ... 141s Selecting previously unselected package python3-pil:s390x. 141s Preparing to unpack .../41-python3-pil_10.4.0-1ubuntu1_s390x.deb ... 141s Unpacking python3-pil:s390x (10.4.0-1ubuntu1) ... 141s Selecting previously unselected package python3-cairo. 141s Preparing to unpack .../42-python3-cairo_1.26.1-2_s390x.deb ... 141s Unpacking python3-cairo (1.26.1-2) ... 141s Selecting previously unselected package python3-freetype. 141s Preparing to unpack .../43-python3-freetype_2.5.1-1_all.deb ... 141s Unpacking python3-freetype (2.5.1-1) ... 141s Selecting previously unselected package python3-rlpycairo. 141s Preparing to unpack .../44-python3-rlpycairo_0.3.0-3_all.deb ... 141s Unpacking python3-rlpycairo (0.3.0-3) ... 141s Selecting previously unselected package python3-reportlab. 141s Preparing to unpack .../45-python3-reportlab_4.2.5-1_all.deb ... 141s Unpacking python3-reportlab (4.2.5-1) ... 141s Selecting previously unselected package xml-core. 141s Preparing to unpack .../46-xml-core_0.19_all.deb ... 141s Unpacking xml-core (0.19) ... 141s Selecting previously unselected package w3c-sgml-lib. 141s Preparing to unpack .../47-w3c-sgml-lib_1.3-3_all.deb ... 141s Unpacking w3c-sgml-lib (1.3-3) ... 141s Selecting previously unselected package python3-biopython. 141s Preparing to unpack .../48-python3-biopython_1.84+dfsg-4build1_s390x.deb ... 141s Unpacking python3-biopython (1.84+dfsg-4build1) ... 141s Selecting previously unselected package python3-biopython-sql. 141s Preparing to unpack .../49-python3-biopython-sql_1.84+dfsg-4build1_all.deb ... 141s Unpacking python3-biopython-sql (1.84+dfsg-4build1) ... 141s Selecting previously unselected package autopkgtest-satdep. 141s Preparing to unpack .../50-1-autopkgtest-satdep.deb ... 141s Unpacking autopkgtest-satdep (0) ... 141s Setting up libgraphite2-3:s390x (1.3.14-2ubuntu1) ... 141s Setting up liblcms2-2:s390x (2.16-2) ... 141s Setting up libpixman-1-0:s390x (0.44.0-3) ... 141s Setting up libsharpyuv0:s390x (1.4.0-0.1) ... 141s Setting up libxrender1:s390x (1:0.9.10-1.1build1) ... 141s Setting up libxcb-render0:s390x (1.17.0-2) ... 141s Setting up x11-common (1:7.7+23ubuntu3) ... 142s Setting up libdeflate0:s390x (1.22-1) ... 142s Setting up python3-all (3.12.6-0ubuntu1) ... 142s Setting up libxcb-shm0:s390x (1.17.0-2) ... 142s Setting up libgomp1:s390x (14.2.0-8ubuntu1) ... 142s Setting up libjbig0:s390x (2.1-6.1ubuntu2) ... 142s Setting up libfontenc1:s390x (1:1.1.8-1build1) ... 142s Setting up libblas3:s390x (3.12.0-3build2) ... 142s 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 142s Setting up libfreetype6:s390x (2.13.3+dfsg-1) ... 142s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 142s Setting up libimagequant0:s390x (2.18.0-1build1) ... 142s Setting up fonts-dejavu-mono (2.37-8) ... 142s Setting up fonts-dejavu-core (2.37-8) ... 142s Setting up libjpeg-turbo8:s390x (2.1.5-2ubuntu2) ... 142s Setting up libgfortran5:s390x (14.2.0-8ubuntu1) ... 142s Setting up libwebp7:s390x (1.4.0-0.1) ... 142s Setting up libopenjp2-7:s390x (2.5.0-2ubuntu1) ... 142s Setting up libharfbuzz0b:s390x (10.0.1-1) ... 142s Setting up sgml-base (1.31) ... 142s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 142s Setting up libwebpmux3:s390x (1.4.0-0.1) ... 142s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 142s Setting up libjpeg8:s390x (8c-2ubuntu11) ... 142s Setting up liblapack3:s390x (3.12.0-3build2) ... 142s 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 142s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 142s Setting up libwebpdemux2:s390x (1.4.0-0.1) ... 142s Setting up python3-freetype (2.5.1-1) ... 142s Setting up xfonts-utils (1:7.7+7) ... 142s Setting up libraqm0:s390x (0.10.1-1build1) ... 142s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 144s Setting up libjs-sphinxdoc (7.4.7-4) ... 144s Setting up python-biopython-doc (1.84+dfsg-4build1) ... 144s Setting up libtiff6:s390x (4.5.1+git230720-4ubuntu4) ... 144s Setting up xml-core (0.19) ... 144s Setting up libfontconfig1:s390x (2.15.0-1.1ubuntu2) ... 144s Setting up fonts-urw-base35 (20200910-8) ... 144s Setting up libcairo2:s390x (1.18.2-2) ... 144s Setting up python3-pil:s390x (10.4.0-1ubuntu1) ... 144s Setting up python3-cairo (1.26.1-2) ... 145s Setting up python3-rlpycairo (0.3.0-3) ... 145s Setting up python3-reportlab (4.2.5-1) ... 145s Processing triggers for libc-bin (2.40-1ubuntu3) ... 145s Processing triggers for man-db (2.12.1-3) ... 145s Processing triggers for sgml-base (1.31) ... 145s Setting up w3c-sgml-lib (1.3-3) ... 166s Setting up python3-biopython (1.84+dfsg-4build1) ... 167s Setting up python3-biopython-sql (1.84+dfsg-4build1) ... 167s Setting up autopkgtest-satdep (0) ... 170s (Reading database ... 60933 files and directories currently installed.) 170s Removing autopkgtest-satdep (0) ... 170s autopkgtest [21:31:26]: test dependencies: sh debian/tests/run-unit-test 170s autopkgtest [21:31:26]: test dependencies: [----------------------- 170s cp: cannot stat '/usr/share/libcifpp/mmcif_pdbx.dic': No such file or directory 170s cp: cannot stat '/usr/share/libcifpp/mmcif_ma.dic': No such file or directory 170s cp: cannot stat '/usr/share/doc/python-biopython-doc/Doc/Tutorial': No such file or directory 170s cp: cannot stat '/usr/share/doc/python-biopython-doc/Doc/examples': No such file or directory 171s mkdir: created directory 'Bio' 171s mkdir: created directory 'Bio/Align' 171s mkdir: created directory 'Bio/Align/substitution_matrices' 171s mkdir: created directory 'Bio/Align/substitution_matrices/data/' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER22' -> 'Bio/Align/substitution_matrices/data/BENNER22' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER6' -> 'Bio/Align/substitution_matrices/data/BENNER6' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER74' -> 'Bio/Align/substitution_matrices/data/BENNER74' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLASTN' -> 'Bio/Align/substitution_matrices/data/BLASTN' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLASTP' -> 'Bio/Align/substitution_matrices/data/BLASTP' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM45' -> 'Bio/Align/substitution_matrices/data/BLOSUM45' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM50' -> 'Bio/Align/substitution_matrices/data/BLOSUM50' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM62' -> 'Bio/Align/substitution_matrices/data/BLOSUM62' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM80' -> 'Bio/Align/substitution_matrices/data/BLOSUM80' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM90' -> 'Bio/Align/substitution_matrices/data/BLOSUM90' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/DAYHOFF' -> 'Bio/Align/substitution_matrices/data/DAYHOFF' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/FENG' -> 'Bio/Align/substitution_matrices/data/FENG' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/GENETIC' -> 'Bio/Align/substitution_matrices/data/GENETIC' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/GONNET1992' -> 'Bio/Align/substitution_matrices/data/GONNET1992' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/HOXD70' -> 'Bio/Align/substitution_matrices/data/HOXD70' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/JOHNSON' -> 'Bio/Align/substitution_matrices/data/JOHNSON' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/JONES' -> 'Bio/Align/substitution_matrices/data/JONES' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/LEVIN' -> 'Bio/Align/substitution_matrices/data/LEVIN' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MCLACHLAN' -> 'Bio/Align/substitution_matrices/data/MCLACHLAN' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MDM78' -> 'Bio/Align/substitution_matrices/data/MDM78' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MEGABLAST' -> 'Bio/Align/substitution_matrices/data/MEGABLAST' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/NUC.4.4' -> 'Bio/Align/substitution_matrices/data/NUC.4.4' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM250' -> 'Bio/Align/substitution_matrices/data/PAM250' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM30' -> 'Bio/Align/substitution_matrices/data/PAM30' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM70' -> 'Bio/Align/substitution_matrices/data/PAM70' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/RAO' -> 'Bio/Align/substitution_matrices/data/RAO' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/RISLER' -> 'Bio/Align/substitution_matrices/data/RISLER' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/SCHNEIDER' -> 'Bio/Align/substitution_matrices/data/SCHNEIDER' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/STR' -> 'Bio/Align/substitution_matrices/data/STR' 171s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/TRANS' -> 'Bio/Align/substitution_matrices/data/TRANS' 171s Remove test test_Tutorial.py which is bound to fail 171s test_Ace ... ok 171s test_Affy ... ok 173s test_AlignIO ... ok 173s test_AlignIO_ClustalIO ... ok 173s test_AlignIO_EmbossIO ... ok 173s test_AlignIO_FastaIO ... ok 173s test_AlignIO_MauveIO ... ok 173s test_AlignIO_PhylipIO ... ok 173s test_AlignIO_convert ... ok 173s test_AlignInfo ... ok 174s test_Align_Alignment ... ok 174s test_Align_a2m ... ok 174s test_Align_bed ... ok 174s test_Align_bigbed ... ok 174s test_Align_bigmaf ... ok 175s test_Align_bigpsl ... ok 175s test_Align_chain ... ok 175s test_Align_clustal ... ok 178s test_Align_codonalign ... ok 178s test_Align_emboss ... ok 178s test_Align_exonerate ... ok 178s test_Align_fasta ... ok 179s test_Align_hhr ... ok 179s test_Align_maf ... ok 179s test_Align_mauve ... ok 179s test_Align_msf ... ok 179s test_Align_nexus ... ok 179s test_Align_phylip ... ok 180s test_Align_psl ... ok 180s test_Align_sam ... ok 181s test_Align_stockholm ... ok 182s test_Align_tabular ... ok 182s test_Application ... ok 182s test_BioSQL_MySQLdb_online ... skipping. internet not available 182s test_BioSQL_mysql_connector ... skipping. BioSQL test configuration file biosql.ini missing (see biosql.ini.sample) 182s test_BioSQL_mysql_connector_online ... skipping. internet not available 182s test_BioSQL_psycopg2_online ... skipping. internet not available 185s test_BioSQL_sqlite3 ... ok 185s test_BioSQL_sqlite3_online ... skipping. internet not available 185s test_Blast_Record ... ok 185s test_Blast_parser ... ok 185s test_CAPS ... ok 185s test_Chi2 ... ok 185s test_ClustalOmega_tool ... skipping. Install clustalo if you want to use Clustal Omega from Biopython. 185s test_Clustalw_tool ... skipping. Install clustalw or clustalw2 if you want to use it from Biopython. 185s test_Cluster ... ok 185s test_CodonTable ... ok 185s test_ColorSpiral ... ok 185s test_Compass ... ok 186s test_Consensus ... ok 186s test_Dialign_tool ... skipping. Install DIALIGN2-2 if you want to use the Bio.Align.Applications wrapper. 186s test_EMBL_unittest ... ok 186s test_Emboss ... skipping. $EMBOSS_ROOT='/usr/lib/emboss' which does not exist! 186s test_EmbossPrimer ... ok 190s test_Entrez ... ok 191s test_Entrez_online ... skipping. internet not available 191s test_Entrez_parser ... ok 191s test_Enzyme ... ok 191s test_ExPASy ... skipping. internet not available 191s test_Fasttree_tool ... skipping. Install FastTree and correctly set the file path to the program if you want to use it from Biopython. 191s test_File ... ok 191s test_GenBank ... ok 193s test_GenomeDiagram ... Warn: Can't find .pfb for face 'Helvetica' 194s ok 195s test_GraphicsChromosome ... ok 195s test_GraphicsDistribution ... ok 196s test_GraphicsGeneral ... ok 196s test_HMMCasino ... ok 196s test_HMMGeneral ... ok 196s test_KEGG ... ok 196s test_KEGG_online ... skipping. internet not available 201s test_KGML_graphics ... ok 201s test_KGML_graphics_online ... skipping. internet not available 201s test_KGML_nographics ... ok 201s test_KeyWList ... ok 201s test_LogisticRegression ... ok 202s test_MafIO_index ... ok 202s test_Mafft_tool ... skipping. Install MAFFT if you want to use the Bio.Align.Applications wrapper. 202s test_MarkovModel ... ok 202s test_Medline ... ok 202s test_Muscle_tool ... skipping. Install MUSCLE if you want to use the Bio.Align.Applications wrapper. 203s test_NCBIXML ... ok 203s test_NCBI_BLAST_tools ... skipping. Install the NCBI BLAST+ command line tools if you want to use the Bio.Blast.Applications wrapper. 203s test_NCBI_qblast ... ok 203s test_NMR ... ok 203s test_NaiveBayes ... ok 203s test_Nexus ... ok 203s test_PAML_baseml ... ok 204s test_PAML_codeml ... ok 204s test_PAML_yn00 ... ok 207s test_PDB_CEAligner ... ok 207s test_PDB_DSSP ... ok 207s test_PDB_Dice ... ok 207s test_PDB_Disordered ... ok 207s test_PDB_Exposure ... ok 207s test_PDB_FragmentMapper ... ok 209s test_PDB_KDTree ... ok 209s test_PDB_MMCIF2Dict ... ok 209s test_PDB_MMCIFIO ... ok 209s test_PDB_MMCIFParser ... ok 209s test_PDB_NACCESS ... ok 210s test_PDB_PDBIO ... ok 210s test_PDB_PDBList ... skipping. internet not available 218s test_PDB_PDBMLParser ... ok 218s test_PDB_PDBParser ... ok 219s test_PDB_PSEA ... skipping. Download and install psea from ftp://ftp.lmcp.jussieu.fr/pub/sincris/software/protein/p-sea/. Make sure that psea is on path 219s test_PDB_Polypeptide ... ok 219s test_PDB_QCPSuperimposer ... ok 222s test_PDB_SASA ... ok 222s test_PDB_SMCRA ... ok 222s test_PDB_Selection ... ok 222s test_PDB_StructureAlignment ... ok 222s test_PDB_Superimposer ... ok 222s test_PDB_alphafold_db ... skipping. internet not available 222s test_PDB_internal_coords ... skipping. Error: Install mmtf to use Bio.PDB.mmtf (e.g. pip install mmtf-python) 222s 223s test_PDB_parse_pdb_header ... ok 223s test_PDB_vectors ... ok 223s test_PQR ... ok 223s test_Pathway ... ok 223s test_Phd ... ok 223s test_Phylo ... ok 223s test_PhyloXML ... ok 223s test_Phylo_CDAO ... skipping. Install RDFlib if you want to use the CDAO tree format. 223s test_Phylo_NeXML ... ok 223s test_Phylo_igraph ... skipping. Install igraph if you wish to use it with Bio.Phylo 224s test_Phylo_matplotlib ... skipping. Install matplotlib if you want to use Bio.Phylo._utils. 224s test_Phylo_networkx ... skipping. Install networkx if you wish to use it with Bio.Phylo 224s test_PopGen_GenePop_nodepend ... ok 224s test_Prank_tool ... skipping. Install PRANK if you want to use the Bio.Align.Applications wrapper. 224s test_Probcons_tool ... skipping. Install PROBCONS if you want to use the Bio.Align.Applications wrapper. 224s test_ProtParam ... ok 224s test_RCSBFormats ... ok 224s test_Restriction ... ok 224s test_SCOP_Astral ... ok 224s test_SCOP_Cla ... ok 224s test_SCOP_Des ... ok 224s test_SCOP_Dom ... ok 224s test_SCOP_Hie ... ok 224s test_SCOP_Raf ... ok 224s test_SCOP_Residues ... ok 224s test_SCOP_Scop ... ok 224s test_SVDSuperimposer ... ok 224s test_SearchIO_blast_tab ... ok 224s test_SearchIO_blast_tab_index ... ok 225s test_SearchIO_blast_xml ... ok 226s test_SearchIO_blast_xml_index ... ok 226s test_SearchIO_blat_psl ... ok 226s test_SearchIO_blat_psl_index ... ok 226s test_SearchIO_exonerate ... ok 226s test_SearchIO_exonerate_text_index ... ok 226s test_SearchIO_exonerate_vulgar_index ... ok 226s test_SearchIO_fasta_m10 ... ok 226s test_SearchIO_fasta_m10_index ... ok 226s test_SearchIO_hhsuite2_text ... ok 226s test_SearchIO_hmmer2_text ... ok 226s test_SearchIO_hmmer2_text_index ... ok 226s test_SearchIO_hmmer3_domtab ... ok 226s test_SearchIO_hmmer3_domtab_index ... ok 227s test_SearchIO_hmmer3_tab ... ok 227s test_SearchIO_hmmer3_tab_index ... ok 227s test_SearchIO_hmmer3_text ... ok 227s test_SearchIO_hmmer3_text_index ... ok 227s test_SearchIO_interproscan_xml ... ok 227s test_SearchIO_model ... ok 227s test_SearchIO_write ... ok 227s test_SeqFeature ... ok 242s test_SeqIO ... ok 242s test_SeqIO_AbiIO ... ok 242s test_SeqIO_FastaIO ... ok 242s test_SeqIO_Gck ... ok 242s test_SeqIO_Gfa ... ok 242s test_SeqIO_Insdc ... ok 242s test_SeqIO_NibIO ... ok 244s test_SeqIO_PdbIO ... ok 245s test_SeqIO_QualityIO ... ok 245s test_SeqIO_SeqXML ... ok 245s test_SeqIO_SnapGene ... ok 246s test_SeqIO_TwoBitIO ... ok 246s test_SeqIO_Xdna ... ok 246s test_SeqIO_features ... ok 258s test_SeqIO_index ... ok 258s test_SeqIO_online ... skipping. internet not available 258s test_SeqIO_write ... ok 258s test_SeqRecord ... ok 258s test_SeqUtils ... ok 259s test_Seq_objs ... ok 259s test_SffIO ... ok 260s test_SwissProt ... ok 260s test_TCoffee_tool ... skipping. Install TCOFFEE if you want to use the Bio.Align.Applications wrapper. 260s test_TogoWS ... skipping. internet not available 260s test_TreeConstruction ... ok 260s test_UniGene ... ok 260s test_UniProt ... skipping. internet not available 260s test_UniProt_GOA ... ok 260s test_UniProt_Parser ... ok 260s test_align ... ok 261s test_align_substitution_matrices ... ok 263s test_bgzf ... ok 263s test_cellosaurus ... ok 267s test_codonalign ... ok 267s test_geo ... ok 267s test_kNN ... ok 267s test_motifs ... ok 267s test_motifs_online ... skipping. internet not available 267s test_pairwise2 ... /usr/lib/python3/dist-packages/Bio/pairwise2.py:278: BiopythonDeprecationWarning: Bio.pairwise2 has been deprecated, and we intend to remove it in a future release of Biopython. As an alternative, please consider using Bio.Align.PairwiseAligner as a replacement, and contact the Biopython developers if you still need the Bio.pairwise2 module. 267s warnings.warn( 267s ok 267s test_pairwise2_no_C ... ok 267s test_pairwise_aligner ... ok 267s test_pairwise_alignment_map ... ok 273s test_phenotype ... ok 273s test_phenotype_fit ... skipping. Install SciPy if you want to use Bio.phenotype fit functionality. 273s test_phyml_tool ... skipping. Couldn't find the PhyML software. Install PhyML 3.0 or later if you want to use the Bio.Phylo.Applications wrapper. 273s test_prodoc ... ok 273s test_prosite ... ok 273s test_raxml_tool ... skipping. Install RAxML (binary raxmlHPC) if you want to test the Bio.Phylo.Applications wrapper. 273s test_samtools_tool ... skipping. Install samtools and correctly set the file path to the program if you want to use it from Biopython 273s test_seq ... ok 273s test_translate ... ok 273s Skipping any tests requiring internet access 273s Python version: 3.12.7 (main, Nov 8 2024, 17:55:36) [GCC 14.2.0] 273s Operating system: posix linux 273s ---------------------------------------------------------------------- 273s Ran 216 tests in 102.224 seconds 273s 274s autopkgtest [21:33:10]: test dependencies: -----------------------] 274s autopkgtest [21:33:10]: test dependencies: - - - - - - - - - - results - - - - - - - - - - 274s dependencies PASS 275s autopkgtest [21:33:11]: test full_suite: preparing testbed 388s autopkgtest [21:35:04]: testbed dpkg architecture: s390x 388s autopkgtest [21:35:04]: testbed apt version: 2.9.8 388s autopkgtest [21:35:04]: @@@@@@@@@@@@@@@@@@@@ test bed setup 389s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 390s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 390s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [1037 kB] 390s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [16.1 kB] 390s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [106 kB] 390s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x Packages [126 kB] 390s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x Packages [745 kB] 390s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse s390x Packages [4648 B] 390s Fetched 2117 kB in 1s (2584 kB/s) 390s Reading package lists... 392s Reading package lists... 392s Building dependency tree... 392s Reading state information... 392s Calculating upgrade... 392s The following packages will be upgraded: 392s libcap-ng0 pastebinit python3-systemd 392s 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 392s Need to get 77.8 kB of archives. 392s After this operation, 123 kB of additional disk space will be used. 392s Get:1 http://ftpmaster.internal/ubuntu plucky/main s390x libcap-ng0 s390x 0.8.5-3build1 [15.9 kB] 393s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x pastebinit all 1.7.1-1 [14.9 kB] 393s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x python3-systemd s390x 235-1build5 [46.9 kB] 393s Fetched 77.8 kB in 0s (221 kB/s) 393s (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 ... 55511 files and directories currently installed.) 393s Preparing to unpack .../libcap-ng0_0.8.5-3build1_s390x.deb ... 393s Unpacking libcap-ng0:s390x (0.8.5-3build1) over (0.8.5-1) ... 393s Setting up libcap-ng0:s390x (0.8.5-3build1) ... 393s (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 ... 55511 files and directories currently installed.) 393s Preparing to unpack .../pastebinit_1.7.1-1_all.deb ... 393s Unpacking pastebinit (1.7.1-1) over (1.7.0-1) ... 393s Preparing to unpack .../python3-systemd_235-1build5_s390x.deb ... 393s Unpacking python3-systemd (235-1build5) over (235-1build4) ... 393s Setting up pastebinit (1.7.1-1) ... 393s Setting up python3-systemd (235-1build5) ... 393s Processing triggers for man-db (2.12.1-3) ... 394s Processing triggers for libc-bin (2.40-1ubuntu3) ... 394s Reading package lists... 394s Building dependency tree... 394s Reading state information... 394s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 394s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 394s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 394s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 395s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 395s Reading package lists... 395s Reading package lists... 395s Building dependency tree... 395s Reading state information... 395s Calculating upgrade... 396s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 396s Reading package lists... 396s Building dependency tree... 396s Reading state information... 396s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 402s Reading package lists... 402s Building dependency tree... 402s Reading state information... 402s Starting pkgProblemResolver with broken count: 0 402s Starting 2 pkgProblemResolver with broken count: 0 402s Done 403s The following additional packages will be installed: 403s autoconf automake autopoint autotools-dev blt build-essential bwa clustalo 403s cpp cpp-14 cpp-14-s390x-linux-gnu cpp-s390x-linux-gnu debhelper debugedit 403s dh-autoreconf dh-python dh-strip-nondeterminism dialign docutils-common dssp 403s dwz fasttree flex fontconfig-config fonts-dejavu-core fonts-dejavu-mono 403s fonts-font-awesome fonts-lato fonts-lmodern fonts-lyx fonts-urw-base35 g++ 403s g++-14 g++-14-s390x-linux-gnu g++-s390x-linux-gnu gcc gcc-14 403s gcc-14-s390x-linux-gnu gcc-s390x-linux-gnu gettext ghostscript hevea 403s hicolor-icon-theme imagemagick imagemagick-6-common imagemagick-6.q16 403s intltool-debian libaom3 libapache-pom-java libarchive-zip-perl 403s libargtable2-0 libasan8 libavahi-client3 libavahi-common-data 403s libavahi-common3 libblas3 libcairo2 libcc1-0 libcifpp-data libcifpp7 403s libcommons-logging-java libcommons-parent-java libcups2t64 libde265-0 403s libdebhelper-perl libdeflate0 libexpat1-dev libfftw3-double3 403s libfile-stripnondeterminism-perl libfontbox-java libfontconfig1 libfontenc1 403s libfreetype6 libgcc-14-dev libgfortran5 libgomp1 libgraphite2-3 libgs-common 403s libgs10 libgs10-common libharfbuzz0b libheif-plugin-aomdec 403s libheif-plugin-libde265 libheif1 libice6 libidn12 libijs-0.35 libimagequant0 403s libisl23 libitm1 libjbig0 libjbig2dec0 libjpeg-turbo8 libjpeg8 libjs-jquery 403s libjs-jquery-ui libjs-sphinxdoc libjs-underscore libjson-perl libkpathsea6 403s liblapack3 liblbfgsb0 liblcms2-2 liblqr-1-0 libltdl7 403s libmagickcore-6.q16-7t64 libmagickwand-6.q16-7t64 libmbedcrypto7t64 403s libmbedtls14t64 libmbedx509-1t64 libmpc3 libmpfi0 libmysqlclient21 403s libnetpbm11t64 libopenjp2-7 libpaper-utils libpaper1 libpdfbox-java 403s libpixman-1-0 libpotrace0 libptexenc1 libpython3-all-dev libpython3-dev 403s libpython3.12-dev libqhull-r8.0 libraqm0 libraw23t64 libsharpyuv0 libsm6 403s libstdc++-14-dev libsynctex2 libtcl8.6 libteckit0 libtexlua53-5 libtiff6 403s libtk8.6 libtool libubsan1 libwebp7 libwebpdemux2 libwebpmux3 libxaw7 403s libxcb-render0 libxcb-shm0 libxft2 libxi6 libxmu6 libxpm4 libxrender1 403s libxslt1.1 libxss1 libxt6t64 libzzip-0-13t64 m4 mafft mysql-common 403s ncbi-blast+ ncbi-data netpbm phylip po-debconf poppler-data prank 403s preview-latex-style probcons python-biopython-doc python-matplotlib-data 403s python3-alabaster python3-all python3-all-dev python3-appdirs 403s python3-biopython python3-biopython-sql python3-brotli python3-cairo 403s python3-contourpy python3-cycler python3-dateutil python3-decorator 403s python3-defusedxml python3-dev python3-docutils python3-fonttools 403s python3-freetype python3-fs python3-imagesize python3-kiwisolver 403s python3-lxml python3-lz4 python3-matplotlib python3-mmtf python3-mpmath 403s python3-msgpack python3-mysqldb python3-networkx python3-numpy 403s python3-numpydoc python3-packaging python3-pil python3-pil.imagetk 403s python3-rdflib python3-reportlab python3-rlpycairo python3-roman 403s python3-scipy python3-six python3-snowballstemmer python3-sphinx 403s python3-sphinx-rtd-theme python3-sphinxcontrib.jquery python3-sympy 403s python3-tabulate python3-tk python3-tz python3-ufolib2 python3.12-dev 403s python3.12-tk sgml-base sphinx-common sphinx-rtd-theme-common t-coffee 403s t1utils tex-common texlive-base texlive-binaries texlive-fonts-recommended 403s texlive-latex-base texlive-latex-extra texlive-latex-recommended 403s texlive-pictures tk8.6-blt2.5 unicode-data w3c-sgml-lib wise wise-data 403s x11-common xdg-utils xfonts-encodings xfonts-utils xml-core zlib1g-dev 403s Suggested packages: 403s autoconf-archive gnu-standards autoconf-doc blt-demo samtools cpp-doc 403s gcc-14-locales cpp-14-doc dh-make flit python3-build python3-installer 403s python3-wheel bison flex-doc fonts-freefont-otf | fonts-freefont-ttf 403s fonts-texgyre gcc-14-doc gcc-multilib manpages-dev gdb gcc-doc 403s gdb-s390x-linux-gnu gettext-doc libasprintf-dev libgettextpo-dev hevea-doc 403s imagemagick-6-doc autotrace cups-bsd | lpr | lprng enscript ffmpeg gimp 403s gnuplot grads graphviz hp2xx html2ps libwmf-bin mplayer povray radiance 403s sane-utils transfig libraw-bin libavalon-framework-java 403s libexcalibur-logkit-java liblog4j1.2-java cups-common libfftw3-bin 403s libfftw3-dev libheif-plugin-x265 libheif-plugin-ffmpegdec 403s libheif-plugin-jpegdec libheif-plugin-jpegenc libheif-plugin-j2kdec 403s libheif-plugin-j2kenc libheif-plugin-kvazaar libheif-plugin-rav1e 403s libheif-plugin-svtenc libjs-jquery-ui-docs liblcms2-utils 403s libmagickcore-6.q16-7-extra libmpfi-doc libstdc++-14-doc tcl8.6 tk8.6 403s libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc phylip-doc 403s libmail-box-perl poppler-utils fonts-japanese-mincho | fonts-ipafont-mincho 403s fonts-japanese-gothic | fonts-ipafont-gothic fonts-arphic-ukai 403s fonts-arphic-uming fonts-nanum probcons-extra clustalw emboss muscle3 phyml 403s python3-psycopg2 raxml python-cycler-doc docutils-doc fonts-linuxlibertine 403s | ttf-linux-libertine texlive-lang-french python-lxml-doc cm-super-minimal 403s dvipng fonts-staypuft gir1.2-gtk-3.0 inkscape ipython3 librsvg2-common 403s python-matplotlib-doc python3-cairocffi python3-gi-cairo python3-gobject 403s python3-pyqt5 python3-sip python3-tornado texlive-extra-utils 403s python-mpmath-doc python3-gmpy2 default-mysql-server | virtual-mysql-server 403s python3-gdal python3-pydot python3-pygraphviz gfortran python-numpy-doc 403s python3-pytest python-pil-doc python-rdflib-doc pdf-viewer 403s python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm 403s python-scipy-doc python3-stemmer dvisvgm fonts-freefont-otf latexmk 403s libjs-mathjax sphinx-doc tex-gyre texlive-fonts-extra texlive-plain-generic 403s python-sympy-doc tix python3-tk-dbg python3.13-tk sgml-base-doc boxshade 403s seaview t-coffee-examples perl-tk xpdf | pdf-viewer xzdec hintview 403s texlive-fonts-recommended-doc texlive-latex-base-doc wp2latex icc-profiles 403s libfile-which-perl texlive-latex-extra-doc texlive-science 403s texlive-latex-recommended-doc texlive-luatex texlive-pstricks dot2tex prerex 403s texlive-pictures-doc vprerex wise-doc 403s Recommended packages: 403s libfl-dev libmagickcore-6.q16-7-extra libarchive-cpio-perl 403s fonts-droid-fallback libheif-plugin-aomenc javascript-common libjson-xs-perl 403s libltdl-dev blast2 libwww-perl lynx ruby libmail-sendmail-perl python3-bs4 403s python3-cssselect python3-html5lib python3-olefile python3-html5rdf 403s python3-orjson fonts-dejavu-extra isympy-common amap-align clustalw 403s dialign-tx fsa kalign libsoap-lite-perl libxml-simple-perl muscle mustang 403s poa proda tm-align lmodern dvisvgm tex-gyre tipa default-jre 403s libspreadsheet-parseexcel-perl texlive-plain-generic tk 403s libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils 403s x11-xserver-utils 403s The following NEW packages will be installed: 403s autoconf automake autopkgtest-satdep autopoint autotools-dev blt 403s build-essential bwa clustalo cpp cpp-14 cpp-14-s390x-linux-gnu 403s cpp-s390x-linux-gnu debhelper debugedit dh-autoreconf dh-python 403s dh-strip-nondeterminism dialign docutils-common dssp dwz fasttree flex 403s fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-font-awesome 403s fonts-lato fonts-lmodern fonts-lyx fonts-urw-base35 g++ g++-14 403s g++-14-s390x-linux-gnu g++-s390x-linux-gnu gcc gcc-14 gcc-14-s390x-linux-gnu 403s gcc-s390x-linux-gnu gettext ghostscript hevea hicolor-icon-theme imagemagick 403s imagemagick-6-common imagemagick-6.q16 intltool-debian libaom3 403s libapache-pom-java libarchive-zip-perl libargtable2-0 libasan8 403s libavahi-client3 libavahi-common-data libavahi-common3 libblas3 libcairo2 403s libcc1-0 libcifpp-data libcifpp7 libcommons-logging-java 403s libcommons-parent-java libcups2t64 libde265-0 libdebhelper-perl libdeflate0 403s libexpat1-dev libfftw3-double3 libfile-stripnondeterminism-perl 403s libfontbox-java libfontconfig1 libfontenc1 libfreetype6 libgcc-14-dev 403s libgfortran5 libgomp1 libgraphite2-3 libgs-common libgs10 libgs10-common 403s libharfbuzz0b libheif-plugin-aomdec libheif-plugin-libde265 libheif1 libice6 403s libidn12 libijs-0.35 libimagequant0 libisl23 libitm1 libjbig0 libjbig2dec0 403s libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui libjs-sphinxdoc 403s libjs-underscore libjson-perl libkpathsea6 liblapack3 liblbfgsb0 liblcms2-2 403s liblqr-1-0 libltdl7 libmagickcore-6.q16-7t64 libmagickwand-6.q16-7t64 403s libmbedcrypto7t64 libmbedtls14t64 libmbedx509-1t64 libmpc3 libmpfi0 403s libmysqlclient21 libnetpbm11t64 libopenjp2-7 libpaper-utils libpaper1 403s libpdfbox-java libpixman-1-0 libpotrace0 libptexenc1 libpython3-all-dev 403s libpython3-dev libpython3.12-dev libqhull-r8.0 libraqm0 libraw23t64 403s libsharpyuv0 libsm6 libstdc++-14-dev libsynctex2 libtcl8.6 libteckit0 403s libtexlua53-5 libtiff6 libtk8.6 libtool libubsan1 libwebp7 libwebpdemux2 403s libwebpmux3 libxaw7 libxcb-render0 libxcb-shm0 libxft2 libxi6 libxmu6 403s libxpm4 libxrender1 libxslt1.1 libxss1 libxt6t64 libzzip-0-13t64 m4 mafft 403s mysql-common ncbi-blast+ ncbi-data netpbm phylip po-debconf poppler-data 403s prank preview-latex-style probcons python-biopython-doc 403s python-matplotlib-data python3-alabaster python3-all python3-all-dev 403s python3-appdirs python3-biopython python3-biopython-sql python3-brotli 403s python3-cairo python3-contourpy python3-cycler python3-dateutil 403s python3-decorator python3-defusedxml python3-dev python3-docutils 403s python3-fonttools python3-freetype python3-fs python3-imagesize 403s python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib python3-mmtf 403s python3-mpmath python3-msgpack python3-mysqldb python3-networkx 403s python3-numpy python3-numpydoc python3-packaging python3-pil 403s python3-pil.imagetk python3-rdflib python3-reportlab python3-rlpycairo 403s python3-roman python3-scipy python3-six python3-snowballstemmer 403s python3-sphinx python3-sphinx-rtd-theme python3-sphinxcontrib.jquery 403s python3-sympy python3-tabulate python3-tk python3-tz python3-ufolib2 403s python3.12-dev python3.12-tk sgml-base sphinx-common sphinx-rtd-theme-common 403s t-coffee t1utils tex-common texlive-base texlive-binaries 403s texlive-fonts-recommended texlive-latex-base texlive-latex-extra 403s texlive-latex-recommended texlive-pictures tk8.6-blt2.5 unicode-data 403s w3c-sgml-lib wise wise-data x11-common xdg-utils xfonts-encodings 403s xfonts-utils xml-core zlib1g-dev 403s 0 upgraded, 242 newly installed, 0 to remove and 0 not upgraded. 403s Need to get 318 MB/318 MB of archives. 403s After this operation, 1176 MB of additional disk space will be used. 403s Get:1 /tmp/autopkgtest.r2ndTA/2-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [992 B] 403s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x m4 s390x 1.4.19-4build1 [256 kB] 403s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x flex s390x 2.6.4-8.2build1 [311 kB] 403s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-lato all 2.015-1 [2781 kB] 403s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x libgomp1 s390x 14.2.0-8ubuntu1 [151 kB] 403s Get:6 http://ftpmaster.internal/ubuntu plucky/main s390x libfftw3-double3 s390x 3.3.10-1ubuntu4 [511 kB] 403s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x libfreetype6 s390x 2.13.3+dfsg-1 [431 kB] 403s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-mono all 2.37-8 [502 kB] 403s Get:9 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-core all 2.37-8 [835 kB] 403s Get:10 http://ftpmaster.internal/ubuntu plucky/main s390x libfontenc1 s390x 1:1.1.8-1build1 [14.8 kB] 403s Get:11 http://ftpmaster.internal/ubuntu plucky/main s390x x11-common all 1:7.7+23ubuntu3 [21.7 kB] 403s Get:12 http://ftpmaster.internal/ubuntu plucky/main s390x xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 403s Get:13 http://ftpmaster.internal/ubuntu plucky/main s390x xfonts-utils s390x 1:7.7+7 [101 kB] 403s Get:14 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-urw-base35 all 20200910-8 [11.0 MB] 404s Get:15 http://ftpmaster.internal/ubuntu plucky/main s390x fontconfig-config s390x 2.15.0-1.1ubuntu2 [37.4 kB] 404s Get:16 http://ftpmaster.internal/ubuntu plucky/main s390x libfontconfig1 s390x 2.15.0-1.1ubuntu2 [150 kB] 404s Get:17 http://ftpmaster.internal/ubuntu plucky/main s390x libsharpyuv0 s390x 1.4.0-0.1 [16.2 kB] 404s Get:18 http://ftpmaster.internal/ubuntu plucky/main s390x libaom3 s390x 3.11.0~rc1-1 [1492 kB] 404s Get:19 http://ftpmaster.internal/ubuntu plucky/main s390x libheif-plugin-aomdec s390x 1.19.3-1 [11.5 kB] 404s Get:20 http://ftpmaster.internal/ubuntu plucky/main s390x libde265-0 s390x 1.0.15-1build4 [175 kB] 404s Get:21 http://ftpmaster.internal/ubuntu plucky/main s390x libheif-plugin-libde265 s390x 1.19.3-1 [8974 B] 404s Get:22 http://ftpmaster.internal/ubuntu plucky/main s390x libheif1 s390x 1.19.3-1 [402 kB] 404s Get:23 http://ftpmaster.internal/ubuntu plucky/main s390x libjbig0 s390x 2.1-6.1ubuntu2 [33.1 kB] 404s Get:24 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu2 [150 kB] 404s Get:25 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B] 404s Get:26 http://ftpmaster.internal/ubuntu plucky/main s390x liblcms2-2 s390x 2.16-2 [175 kB] 404s Get:27 http://ftpmaster.internal/ubuntu plucky/universe s390x liblqr-1-0 s390x 0.4.2-2.1build2 [32.6 kB] 404s Get:28 http://ftpmaster.internal/ubuntu plucky/main s390x libltdl7 s390x 2.4.7-7build1 [41.8 kB] 404s Get:29 http://ftpmaster.internal/ubuntu plucky/main s390x libopenjp2-7 s390x 2.5.0-2ubuntu1 [208 kB] 404s Get:30 http://ftpmaster.internal/ubuntu plucky/main s390x libraw23t64 s390x 0.21.3-1 [415 kB] 404s Get:31 http://ftpmaster.internal/ubuntu plucky/main s390x libdeflate0 s390x 1.22-1 [46.1 kB] 404s Get:32 http://ftpmaster.internal/ubuntu plucky/main s390x libwebp7 s390x 1.4.0-0.1 [204 kB] 404s Get:33 http://ftpmaster.internal/ubuntu plucky/main s390x libtiff6 s390x 4.5.1+git230720-4ubuntu4 [217 kB] 404s Get:34 http://ftpmaster.internal/ubuntu plucky/main s390x libwebpdemux2 s390x 1.4.0-0.1 [12.2 kB] 404s Get:35 http://ftpmaster.internal/ubuntu plucky/main s390x libwebpmux3 s390x 1.4.0-0.1 [25.3 kB] 404s Get:36 http://ftpmaster.internal/ubuntu plucky/universe s390x imagemagick-6-common all 8:6.9.13.12+dfsg1-1build1 [69.6 kB] 404s Get:37 http://ftpmaster.internal/ubuntu plucky/universe s390x libmagickcore-6.q16-7t64 s390x 8:6.9.13.12+dfsg1-1build1 [1909 kB] 404s Get:38 http://ftpmaster.internal/ubuntu plucky/universe s390x libmagickwand-6.q16-7t64 s390x 8:6.9.13.12+dfsg1-1build1 [344 kB] 404s Get:39 http://ftpmaster.internal/ubuntu plucky/main s390x poppler-data all 0.4.12-1 [2060 kB] 404s Get:40 http://ftpmaster.internal/ubuntu plucky/main s390x sgml-base all 1.31 [11.4 kB] 404s Get:41 http://ftpmaster.internal/ubuntu plucky/main s390x autoconf all 2.72-3 [382 kB] 404s Get:42 http://ftpmaster.internal/ubuntu plucky/main s390x autotools-dev all 20220109.1 [44.9 kB] 404s Get:43 http://ftpmaster.internal/ubuntu plucky/main s390x automake all 1:1.16.5-1.3ubuntu1 [558 kB] 404s Get:44 http://ftpmaster.internal/ubuntu plucky/main s390x autopoint all 0.22.5-2 [616 kB] 404s Get:45 http://ftpmaster.internal/ubuntu plucky/main s390x libtcl8.6 s390x 8.6.15+dfsg-2 [1034 kB] 404s Get:46 http://ftpmaster.internal/ubuntu plucky/main s390x libxrender1 s390x 1:0.9.10-1.1build1 [20.4 kB] 404s Get:47 http://ftpmaster.internal/ubuntu plucky/main s390x libxft2 s390x 2.3.6-1build1 [49.6 kB] 404s Get:48 http://ftpmaster.internal/ubuntu plucky/main s390x libxss1 s390x 1:1.2.3-1build3 [7396 B] 404s Get:49 http://ftpmaster.internal/ubuntu plucky/main s390x libtk8.6 s390x 8.6.15-1 [828 kB] 404s Get:50 http://ftpmaster.internal/ubuntu plucky/main s390x tk8.6-blt2.5 s390x 2.5.3+dfsg-7build1 [662 kB] 404s Get:51 http://ftpmaster.internal/ubuntu plucky/main s390x blt s390x 2.5.3+dfsg-7build1 [4840 B] 404s Get:52 http://ftpmaster.internal/ubuntu plucky/main s390x libisl23 s390x 0.27-1 [704 kB] 404s Get:53 http://ftpmaster.internal/ubuntu plucky/main s390x libmpc3 s390x 1.3.1-1build2 [57.8 kB] 404s Get:54 http://ftpmaster.internal/ubuntu plucky/main s390x cpp-14-s390x-linux-gnu s390x 14.2.0-8ubuntu1 [9570 kB] 404s Get:55 http://ftpmaster.internal/ubuntu plucky/main s390x cpp-14 s390x 14.2.0-8ubuntu1 [1026 B] 404s Get:56 http://ftpmaster.internal/ubuntu plucky/main s390x cpp-s390x-linux-gnu s390x 4:14.1.0-2ubuntu1 [5452 B] 404s Get:57 http://ftpmaster.internal/ubuntu plucky/main s390x cpp s390x 4:14.1.0-2ubuntu1 [22.4 kB] 404s Get:58 http://ftpmaster.internal/ubuntu plucky/main s390x libcc1-0 s390x 14.2.0-8ubuntu1 [50.6 kB] 404s Get:59 http://ftpmaster.internal/ubuntu plucky/main s390x libitm1 s390x 14.2.0-8ubuntu1 [30.9 kB] 404s Get:60 http://ftpmaster.internal/ubuntu plucky/main s390x libasan8 s390x 14.2.0-8ubuntu1 [2963 kB] 404s Get:61 http://ftpmaster.internal/ubuntu plucky/main s390x libubsan1 s390x 14.2.0-8ubuntu1 [1184 kB] 404s Get:62 http://ftpmaster.internal/ubuntu plucky/main s390x libgcc-14-dev s390x 14.2.0-8ubuntu1 [1037 kB] 405s Get:63 http://ftpmaster.internal/ubuntu plucky/main s390x gcc-14-s390x-linux-gnu s390x 14.2.0-8ubuntu1 [18.7 MB] 405s Get:64 http://ftpmaster.internal/ubuntu plucky/main s390x gcc-14 s390x 14.2.0-8ubuntu1 [518 kB] 405s Get:65 http://ftpmaster.internal/ubuntu plucky/main s390x gcc-s390x-linux-gnu s390x 4:14.1.0-2ubuntu1 [1204 B] 405s Get:66 http://ftpmaster.internal/ubuntu plucky/main s390x gcc s390x 4:14.1.0-2ubuntu1 [4996 B] 405s Get:67 http://ftpmaster.internal/ubuntu plucky/main s390x libstdc++-14-dev s390x 14.2.0-8ubuntu1 [2608 kB] 405s Get:68 http://ftpmaster.internal/ubuntu plucky/main s390x g++-14-s390x-linux-gnu s390x 14.2.0-8ubuntu1 [11.0 MB] 405s Get:69 http://ftpmaster.internal/ubuntu plucky/main s390x g++-14 s390x 14.2.0-8ubuntu1 [19.9 kB] 405s Get:70 http://ftpmaster.internal/ubuntu plucky/main s390x g++-s390x-linux-gnu s390x 4:14.1.0-2ubuntu1 [956 B] 405s Get:71 http://ftpmaster.internal/ubuntu plucky/main s390x g++ s390x 4:14.1.0-2ubuntu1 [1076 B] 405s Get:72 http://ftpmaster.internal/ubuntu plucky/main s390x build-essential s390x 12.10ubuntu1 [4930 B] 405s Get:73 http://ftpmaster.internal/ubuntu plucky/universe s390x bwa s390x 0.7.18-1 [249 kB] 405s Get:74 http://ftpmaster.internal/ubuntu plucky/universe s390x libargtable2-0 s390x 13-2 [15.5 kB] 405s Get:75 http://ftpmaster.internal/ubuntu plucky/universe s390x clustalo s390x 1.2.4-8build1 [218 kB] 405s Get:76 http://ftpmaster.internal/ubuntu plucky/main s390x libdebhelper-perl all 13.20ubuntu1 [94.2 kB] 405s Get:77 http://ftpmaster.internal/ubuntu plucky/main s390x libtool all 2.4.7-7build1 [166 kB] 405s Get:78 http://ftpmaster.internal/ubuntu plucky/main s390x dh-autoreconf all 20 [16.1 kB] 405s Get:79 http://ftpmaster.internal/ubuntu plucky/main s390x libarchive-zip-perl all 1.68-1 [90.2 kB] 405s Get:80 http://ftpmaster.internal/ubuntu plucky/main s390x libfile-stripnondeterminism-perl all 1.14.0-1 [20.1 kB] 405s Get:81 http://ftpmaster.internal/ubuntu plucky/main s390x dh-strip-nondeterminism all 1.14.0-1 [5058 B] 405s Get:82 http://ftpmaster.internal/ubuntu plucky/main s390x debugedit s390x 1:5.1-1 [49.9 kB] 405s Get:83 http://ftpmaster.internal/ubuntu plucky/main s390x dwz s390x 0.15-1build6 [122 kB] 405s Get:84 http://ftpmaster.internal/ubuntu plucky/main s390x gettext s390x 0.22.5-2 [996 kB] 405s Get:85 http://ftpmaster.internal/ubuntu plucky/main s390x intltool-debian all 0.35.0+20060710.6 [23.2 kB] 405s Get:86 http://ftpmaster.internal/ubuntu plucky/main s390x po-debconf all 1.0.21+nmu1 [233 kB] 405s Get:87 http://ftpmaster.internal/ubuntu plucky/main s390x debhelper all 13.20ubuntu1 [893 kB] 405s Get:88 http://ftpmaster.internal/ubuntu plucky/universe s390x dh-python all 6.20241024 [112 kB] 405s Get:89 http://ftpmaster.internal/ubuntu plucky/universe s390x dialign s390x 2.2.1-13 [155 kB] 405s Get:90 http://ftpmaster.internal/ubuntu plucky/main s390x xml-core all 0.19 [20.3 kB] 405s Get:91 http://ftpmaster.internal/ubuntu plucky/main s390x docutils-common all 0.21.2+dfsg-2 [131 kB] 405s Get:92 http://ftpmaster.internal/ubuntu plucky/universe s390x libcifpp-data all 7.0.7-3 [480 kB] 406s Get:93 http://ftpmaster.internal/ubuntu plucky/universe s390x libcifpp7 s390x 7.0.7-3 [1100 kB] 406s Get:94 http://ftpmaster.internal/ubuntu plucky/universe s390x dssp s390x 4.4.10-1 [784 kB] 406s Get:95 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [516 kB] 406s Get:96 http://ftpmaster.internal/ubuntu plucky/universe s390x fonts-lmodern all 2.005-1 [4799 kB] 406s Get:97 http://ftpmaster.internal/ubuntu plucky/universe s390x fonts-lyx all 2.4.2.1-1 [171 kB] 406s Get:98 http://ftpmaster.internal/ubuntu plucky/main s390x libgs-common all 10.03.1~dfsg1-0ubuntu3 [175 kB] 406s Get:99 http://ftpmaster.internal/ubuntu plucky/main s390x libgs10-common all 10.03.1~dfsg1-0ubuntu3 [488 kB] 406s Get:100 http://ftpmaster.internal/ubuntu plucky/main s390x libavahi-common-data s390x 0.8-13ubuntu6 [29.7 kB] 406s Get:101 http://ftpmaster.internal/ubuntu plucky/main s390x libavahi-common3 s390x 0.8-13ubuntu6 [24.1 kB] 406s Get:102 http://ftpmaster.internal/ubuntu plucky/main s390x libavahi-client3 s390x 0.8-13ubuntu6 [27.2 kB] 406s Get:103 http://ftpmaster.internal/ubuntu plucky/main s390x libcups2t64 s390x 2.4.10-1ubuntu2 [281 kB] 406s Get:104 http://ftpmaster.internal/ubuntu plucky/main s390x libidn12 s390x 1.42-2 [58.5 kB] 406s Get:105 http://ftpmaster.internal/ubuntu plucky/main s390x libijs-0.35 s390x 0.35-15.1build1 [15.5 kB] 406s Get:106 http://ftpmaster.internal/ubuntu plucky/main s390x libjbig2dec0 s390x 0.20-1build3 [69.3 kB] 406s Get:107 http://ftpmaster.internal/ubuntu plucky/main s390x libpaper1 s390x 1.1.29build1 [13.4 kB] 406s Get:108 http://ftpmaster.internal/ubuntu plucky/main s390x libice6 s390x 2:1.1.1-1 [45.4 kB] 406s Get:109 http://ftpmaster.internal/ubuntu plucky/main s390x libsm6 s390x 2:1.2.4-1 [18.4 kB] 406s Get:110 http://ftpmaster.internal/ubuntu plucky/main s390x libxt6t64 s390x 1:1.2.1-1.2build1 [184 kB] 406s Get:111 http://ftpmaster.internal/ubuntu plucky/main s390x libgs10 s390x 10.03.1~dfsg1-0ubuntu3 [3934 kB] 406s Get:112 http://ftpmaster.internal/ubuntu plucky/main s390x ghostscript s390x 10.03.1~dfsg1-0ubuntu3 [43.6 kB] 406s Get:113 http://ftpmaster.internal/ubuntu plucky/universe s390x libnetpbm11t64 s390x 2:11.08.01-1 [124 kB] 406s Get:114 http://ftpmaster.internal/ubuntu plucky/universe s390x netpbm s390x 2:11.08.01-1 [2202 kB] 406s Get:115 http://ftpmaster.internal/ubuntu plucky/universe s390x tex-common all 6.18 [32.8 kB] 406s Get:116 http://ftpmaster.internal/ubuntu plucky/main s390x libpaper-utils s390x 1.1.29build1 [8442 B] 406s Get:117 http://ftpmaster.internal/ubuntu plucky/main s390x libkpathsea6 s390x 2024.20240313.70630+ds-5 [66.7 kB] 406s Get:118 http://ftpmaster.internal/ubuntu plucky/main s390x libptexenc1 s390x 2024.20240313.70630+ds-5 [43.4 kB] 406s Get:119 http://ftpmaster.internal/ubuntu plucky/main s390x libsynctex2 s390x 2024.20240313.70630+ds-5 [64.6 kB] 406s Get:120 http://ftpmaster.internal/ubuntu plucky/main s390x libtexlua53-5 s390x 2024.20240313.70630+ds-5 [131 kB] 406s Get:121 http://ftpmaster.internal/ubuntu plucky/main s390x t1utils s390x 1.41-4build3 [65.6 kB] 407s Get:122 http://ftpmaster.internal/ubuntu plucky/main s390x libpixman-1-0 s390x 0.44.0-3 [201 kB] 407s Get:123 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-render0 s390x 1.17.0-2 [17.0 kB] 407s Get:124 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-shm0 s390x 1.17.0-2 [5862 B] 407s Get:125 http://ftpmaster.internal/ubuntu plucky/main s390x libcairo2 s390x 1.18.2-2 [580 kB] 407s Get:126 http://ftpmaster.internal/ubuntu plucky/main s390x libgraphite2-3 s390x 1.3.14-2ubuntu1 [79.8 kB] 407s Get:127 http://ftpmaster.internal/ubuntu plucky/main s390x libharfbuzz0b s390x 10.0.1-1 [536 kB] 407s Get:128 http://ftpmaster.internal/ubuntu plucky/universe s390x libmpfi0 s390x 1.5.4+ds-4 [34.1 kB] 407s Get:129 http://ftpmaster.internal/ubuntu plucky/universe s390x libpotrace0 s390x 1.16-2build1 [18.7 kB] 407s Get:130 http://ftpmaster.internal/ubuntu plucky/universe s390x libteckit0 s390x 2.5.12+ds1-1 [433 kB] 407s Get:131 http://ftpmaster.internal/ubuntu plucky/main s390x libxmu6 s390x 2:1.1.3-3build2 [53.0 kB] 407s Get:132 http://ftpmaster.internal/ubuntu plucky/main s390x libxpm4 s390x 1:3.5.17-1build2 [41.2 kB] 407s Get:133 http://ftpmaster.internal/ubuntu plucky/main s390x libxaw7 s390x 2:1.0.16-1 [201 kB] 407s Get:134 http://ftpmaster.internal/ubuntu plucky/main s390x libxi6 s390x 2:1.8.2-1 [35.4 kB] 407s Get:135 http://ftpmaster.internal/ubuntu plucky/universe s390x libzzip-0-13t64 s390x 0.13.72+dfsg.1-1.2build1 [28.6 kB] 407s Get:136 http://ftpmaster.internal/ubuntu plucky/universe s390x texlive-binaries s390x 2024.20240313.70630+ds-5 [9172 kB] 407s Get:137 http://ftpmaster.internal/ubuntu plucky/main s390x xdg-utils all 1.2.1-0ubuntu1 [67.5 kB] 407s Get:138 http://ftpmaster.internal/ubuntu plucky/universe s390x texlive-base all 2024.20241102-1 [22.5 MB] 407s Get:139 http://ftpmaster.internal/ubuntu plucky/main s390x hicolor-icon-theme all 0.18-1 [13.5 kB] 407s Get:140 http://ftpmaster.internal/ubuntu plucky/universe s390x imagemagick-6.q16 s390x 8:6.9.13.12+dfsg1-1build1 [254 kB] 408s Get:141 http://ftpmaster.internal/ubuntu plucky/universe s390x imagemagick s390x 8:6.9.13.12+dfsg1-1build1 [14.2 kB] 408s Get:142 http://ftpmaster.internal/ubuntu plucky/universe s390x hevea s390x 2.36-2 [2045 kB] 408s Get:143 http://ftpmaster.internal/ubuntu plucky/universe s390x libapache-pom-java all 33-2 [5874 B] 408s Get:144 http://ftpmaster.internal/ubuntu plucky/main s390x libblas3 s390x 3.12.0-3build2 [238 kB] 408s Get:145 http://ftpmaster.internal/ubuntu plucky/universe s390x libcommons-parent-java all 56-1 [10.7 kB] 408s Get:146 http://ftpmaster.internal/ubuntu plucky/universe s390x libcommons-logging-java all 1.3.0-1ubuntu1 [63.8 kB] 408s Get:147 http://ftpmaster.internal/ubuntu plucky/main s390x libexpat1-dev s390x 2.6.2-2 [146 kB] 408s Get:148 http://ftpmaster.internal/ubuntu plucky/main s390x libgfortran5 s390x 14.2.0-8ubuntu1 [587 kB] 408s Get:149 http://ftpmaster.internal/ubuntu plucky/main s390x libimagequant0 s390x 2.18.0-1build1 [43.3 kB] 408s Get:150 http://ftpmaster.internal/ubuntu plucky/main s390x libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 408s Get:151 http://ftpmaster.internal/ubuntu plucky/universe s390x libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 408s Get:152 http://ftpmaster.internal/ubuntu plucky/main s390x libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 408s Get:153 http://ftpmaster.internal/ubuntu plucky/main s390x libjs-sphinxdoc all 7.4.7-4 [158 kB] 408s Get:154 http://ftpmaster.internal/ubuntu plucky/main s390x libjson-perl all 4.10000-1 [81.9 kB] 408s Get:155 http://ftpmaster.internal/ubuntu plucky/main s390x liblapack3 s390x 3.12.0-3build2 [2953 kB] 408s Get:156 http://ftpmaster.internal/ubuntu plucky/universe s390x liblbfgsb0 s390x 3.0+dfsg.4-1build1 [32.4 kB] 408s Get:157 http://ftpmaster.internal/ubuntu plucky/universe s390x libmbedcrypto7t64 s390x 2.28.8-1 [219 kB] 408s Get:158 http://ftpmaster.internal/ubuntu plucky/universe s390x libmbedx509-1t64 s390x 2.28.8-1 [46.2 kB] 408s Get:159 http://ftpmaster.internal/ubuntu plucky/universe s390x libmbedtls14t64 s390x 2.28.8-1 [84.7 kB] 408s Get:160 http://ftpmaster.internal/ubuntu plucky/main s390x mysql-common all 5.8+1.1.1 [6800 B] 408s Get:161 http://ftpmaster.internal/ubuntu plucky/main s390x libmysqlclient21 s390x 8.0.40-1 [1294 kB] 408s Get:162 http://ftpmaster.internal/ubuntu plucky/main s390x zlib1g-dev s390x 1:1.3.dfsg+really1.3.1-1ubuntu1 [898 kB] 408s Get:163 http://ftpmaster.internal/ubuntu plucky/main s390x libpython3.12-dev s390x 3.12.7-3 [5838 kB] 408s Get:164 http://ftpmaster.internal/ubuntu plucky/main s390x libpython3-dev s390x 3.12.6-0ubuntu1 [10.2 kB] 408s Get:165 http://ftpmaster.internal/ubuntu plucky/main s390x libpython3-all-dev s390x 3.12.6-0ubuntu1 [918 B] 408s Get:166 http://ftpmaster.internal/ubuntu plucky/universe s390x libqhull-r8.0 s390x 2020.2-6build1 [199 kB] 408s Get:167 http://ftpmaster.internal/ubuntu plucky/main s390x libraqm0 s390x 0.10.1-1build1 [16.2 kB] 408s Get:168 http://ftpmaster.internal/ubuntu plucky/main s390x libxslt1.1 s390x 1.1.39-0exp1ubuntu1 [169 kB] 408s Get:169 http://ftpmaster.internal/ubuntu plucky/universe s390x mafft s390x 7.505-1 [766 kB] 408s Get:170 http://ftpmaster.internal/ubuntu plucky/universe s390x ncbi-data all 6.1.20170106+dfsg2-5 [3966 kB] 408s Get:171 http://ftpmaster.internal/ubuntu plucky/universe s390x ncbi-blast+ s390x 2.16.0+ds-6 [15.2 MB] 408s Get:172 http://ftpmaster.internal/ubuntu plucky/universe s390x phylip s390x 1:3.697+dfsg-4build1 [1051 kB] 408s Get:173 http://ftpmaster.internal/ubuntu plucky/universe s390x prank s390x 0.0.170427+dfsg-3 [357 kB] 408s Get:174 http://ftpmaster.internal/ubuntu plucky/universe s390x preview-latex-style all 13.2-1 [347 kB] 408s Get:175 http://ftpmaster.internal/ubuntu plucky/universe s390x probcons s390x 1.12-14 [109 kB] 409s Get:176 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x python-biopython-doc all 1.84+dfsg-4build1 [18.1 MB] 409s Get:177 http://ftpmaster.internal/ubuntu plucky/universe s390x python-matplotlib-data all 3.8.3-3 [2928 kB] 409s Get:178 http://ftpmaster.internal/ubuntu plucky/main s390x python3-all s390x 3.12.6-0ubuntu1 [890 B] 409s Get:179 http://ftpmaster.internal/ubuntu plucky/main s390x python3.12-dev s390x 3.12.7-3 [505 kB] 409s Get:180 http://ftpmaster.internal/ubuntu plucky/main s390x python3-dev s390x 3.12.6-0ubuntu1 [26.7 kB] 409s Get:181 http://ftpmaster.internal/ubuntu plucky/main s390x python3-all-dev s390x 3.12.6-0ubuntu1 [912 B] 409s Get:182 http://ftpmaster.internal/ubuntu plucky/main s390x python3-appdirs all 1.4.4-4 [10.9 kB] 409s Get:183 http://ftpmaster.internal/ubuntu plucky/main s390x python3-numpy s390x 1:1.26.4+ds-11build1 [4113 kB] 409s Get:184 http://ftpmaster.internal/ubuntu plucky/main s390x python3.12-tk s390x 3.12.7-3 [117 kB] 409s Get:185 http://ftpmaster.internal/ubuntu plucky/main s390x python3-tk s390x 3.12.6-1ubuntu1 [9806 B] 409s Get:186 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pil.imagetk s390x 10.4.0-1ubuntu1 [9314 B] 409s Get:187 http://ftpmaster.internal/ubuntu plucky/main s390x python3-pil s390x 10.4.0-1ubuntu1 [492 kB] 409s Get:188 http://ftpmaster.internal/ubuntu plucky/main s390x python3-cairo s390x 1.26.1-2 [119 kB] 409s Get:189 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-freetype all 2.5.1-1 [92.3 kB] 409s Get:190 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-rlpycairo all 0.3.0-3 [9130 B] 409s Get:191 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-reportlab all 4.2.5-1 [1107 kB] 409s Get:192 http://ftpmaster.internal/ubuntu plucky/universe s390x w3c-sgml-lib all 1.3-3 [280 kB] 409s Get:193 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x python3-biopython s390x 1.84+dfsg-4build1 [1728 kB] 409s Get:194 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x python3-biopython-sql all 1.84+dfsg-4build1 [26.4 kB] 409s Get:195 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-brotli s390x 1.1.0-2build2 [376 kB] 409s Get:196 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-contourpy s390x 1.3.0-2 [195 kB] 409s Get:197 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-cycler all 0.12.1-1 [9716 B] 409s Get:198 http://ftpmaster.internal/ubuntu plucky/main s390x python3-six all 1.16.0-7 [13.1 kB] 409s Get:199 http://ftpmaster.internal/ubuntu plucky/main s390x python3-dateutil all 2.9.0-2 [80.3 kB] 409s Get:200 http://ftpmaster.internal/ubuntu plucky/main s390x python3-decorator all 5.1.1-5 [10.1 kB] 409s Get:201 http://ftpmaster.internal/ubuntu plucky/main s390x python3-defusedxml all 0.7.1-2 [42.0 kB] 409s Get:202 http://ftpmaster.internal/ubuntu plucky/main s390x python3-roman all 4.2-1 [10.0 kB] 409s Get:203 http://ftpmaster.internal/ubuntu plucky/main s390x python3-docutils all 0.21.2+dfsg-2 [409 kB] 410s Get:204 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-scipy s390x 1.13.1-5 [17.5 MB] 411s Get:205 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-ufolib2 all 0.16.1+dfsg1-1 [33.4 kB] 411s Get:206 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-mpmath all 1.3.0-1 [425 kB] 411s Get:207 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-sympy all 1.13.3-1 [4228 kB] 411s Get:208 http://ftpmaster.internal/ubuntu plucky/main s390x python3-tz all 2024.1-2 [31.4 kB] 411s Get:209 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-fs all 2.4.16-4 [91.3 kB] 411s Get:210 http://ftpmaster.internal/ubuntu plucky/main s390x python3-lxml s390x 5.3.0-1 [1314 kB] 411s Get:211 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-lz4 s390x 4.0.2+dfsg-1build4 [26.4 kB] 411s Get:212 http://ftpmaster.internal/ubuntu plucky/universe s390x unicode-data all 15.1.0-1 [8878 kB] 411s Get:213 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-fonttools s390x 4.46.0-1build2 [1453 kB] 411s Get:214 http://ftpmaster.internal/ubuntu plucky/main s390x python3-imagesize all 1.4.1-1 [6844 B] 411s Get:215 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-kiwisolver s390x 1.4.7-2build1 [65.5 kB] 411s Get:216 http://ftpmaster.internal/ubuntu plucky/main s390x python3-packaging all 24.1-1 [41.4 kB] 411s Get:217 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-matplotlib s390x 3.8.3-3 [4554 kB] 411s Get:218 http://ftpmaster.internal/ubuntu plucky/main s390x python3-msgpack s390x 1.0.3-3build2 [85.0 kB] 411s Get:219 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-mmtf all 1.1.3-1 [16.2 kB] 411s Get:220 http://ftpmaster.internal/ubuntu plucky/main s390x python3-mysqldb s390x 1.4.6-2build4 [49.9 kB] 411s Get:221 http://ftpmaster.internal/ubuntu plucky/main s390x python3-networkx all 3.2.1-4ubuntu1 [11.5 MB] 411s Get:222 http://ftpmaster.internal/ubuntu plucky/main s390x sphinx-common all 7.4.7-4 [775 kB] 411s Get:223 http://ftpmaster.internal/ubuntu plucky/main s390x python3-alabaster all 0.7.16-0.1 [18.5 kB] 411s Get:224 http://ftpmaster.internal/ubuntu plucky/main s390x python3-snowballstemmer all 2.2.0-4build1 [59.8 kB] 411s Get:225 http://ftpmaster.internal/ubuntu plucky/main s390x python3-sphinx all 7.4.7-4 [593 kB] 411s Get:226 http://ftpmaster.internal/ubuntu plucky/main s390x python3-tabulate all 0.9.0-1 [45.3 kB] 411s Get:227 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-numpydoc all 1.6.0-2 [50.5 kB] 411s Get:228 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-rdflib all 7.1.1-2 [426 kB] 411s Get:229 http://ftpmaster.internal/ubuntu plucky/main s390x sphinx-rtd-theme-common all 3.0.1+dfsg-1 [1012 kB] 411s Get:230 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-sphinxcontrib.jquery all 4.1-5 [6678 B] 411s Get:231 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-sphinx-rtd-theme all 3.0.1+dfsg-1 [23.5 kB] 411s Get:232 http://ftpmaster.internal/ubuntu plucky/universe s390x t-coffee s390x 13.45.0.4846264+really13.41.0.28bdc39+dfsg-1 [945 kB] 411s Get:233 http://ftpmaster.internal/ubuntu plucky/universe s390x texlive-fonts-recommended all 2024.20241102-1 [4974 kB] 412s Get:234 http://ftpmaster.internal/ubuntu plucky/universe s390x texlive-latex-base all 2024.20241102-1 [1260 kB] 412s Get:235 http://ftpmaster.internal/ubuntu plucky/universe s390x libfontbox-java all 1:1.8.16-5 [208 kB] 412s Get:236 http://ftpmaster.internal/ubuntu plucky/universe s390x libpdfbox-java all 1:1.8.16-5 [5521 kB] 412s Get:237 http://ftpmaster.internal/ubuntu plucky/universe s390x texlive-latex-recommended all 2024.20241102-1 [8739 kB] 412s Get:238 http://ftpmaster.internal/ubuntu plucky/universe s390x texlive-pictures all 2024.20241102-1 [17.0 MB] 413s Get:239 http://ftpmaster.internal/ubuntu plucky/universe s390x texlive-latex-extra all 2024.20241102-1 [24.2 MB] 413s Get:240 http://ftpmaster.internal/ubuntu plucky/universe s390x wise-data all 2.4.1-25 [83.0 kB] 413s Get:241 http://ftpmaster.internal/ubuntu plucky/universe s390x wise s390x 2.4.1-25 [935 kB] 413s Get:242 http://ftpmaster.internal/ubuntu plucky/universe s390x fasttree s390x 2.1.11-2 [190 kB] 414s Preconfiguring packages ... 414s Fetched 318 MB in 11s (29.4 MB/s) 414s Selecting previously unselected package m4. 414s (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 ... 55516 files and directories currently installed.) 414s Preparing to unpack .../000-m4_1.4.19-4build1_s390x.deb ... 414s Unpacking m4 (1.4.19-4build1) ... 414s Selecting previously unselected package flex. 414s Preparing to unpack .../001-flex_2.6.4-8.2build1_s390x.deb ... 414s Unpacking flex (2.6.4-8.2build1) ... 414s Selecting previously unselected package fonts-lato. 414s Preparing to unpack .../002-fonts-lato_2.015-1_all.deb ... 414s Unpacking fonts-lato (2.015-1) ... 414s Selecting previously unselected package libgomp1:s390x. 414s Preparing to unpack .../003-libgomp1_14.2.0-8ubuntu1_s390x.deb ... 414s Unpacking libgomp1:s390x (14.2.0-8ubuntu1) ... 414s Selecting previously unselected package libfftw3-double3:s390x. 414s Preparing to unpack .../004-libfftw3-double3_3.3.10-1ubuntu4_s390x.deb ... 414s Unpacking libfftw3-double3:s390x (3.3.10-1ubuntu4) ... 414s Selecting previously unselected package libfreetype6:s390x. 414s Preparing to unpack .../005-libfreetype6_2.13.3+dfsg-1_s390x.deb ... 414s Unpacking libfreetype6:s390x (2.13.3+dfsg-1) ... 414s Selecting previously unselected package fonts-dejavu-mono. 415s Preparing to unpack .../006-fonts-dejavu-mono_2.37-8_all.deb ... 415s Unpacking fonts-dejavu-mono (2.37-8) ... 415s Selecting previously unselected package fonts-dejavu-core. 415s Preparing to unpack .../007-fonts-dejavu-core_2.37-8_all.deb ... 415s Unpacking fonts-dejavu-core (2.37-8) ... 415s Selecting previously unselected package libfontenc1:s390x. 415s Preparing to unpack .../008-libfontenc1_1%3a1.1.8-1build1_s390x.deb ... 415s Unpacking libfontenc1:s390x (1:1.1.8-1build1) ... 415s Selecting previously unselected package x11-common. 415s Preparing to unpack .../009-x11-common_1%3a7.7+23ubuntu3_all.deb ... 415s Unpacking x11-common (1:7.7+23ubuntu3) ... 415s Selecting previously unselected package xfonts-encodings. 415s Preparing to unpack .../010-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 415s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 415s Selecting previously unselected package xfonts-utils. 415s Preparing to unpack .../011-xfonts-utils_1%3a7.7+7_s390x.deb ... 415s Unpacking xfonts-utils (1:7.7+7) ... 415s Selecting previously unselected package fonts-urw-base35. 415s Preparing to unpack .../012-fonts-urw-base35_20200910-8_all.deb ... 415s Unpacking fonts-urw-base35 (20200910-8) ... 415s Selecting previously unselected package fontconfig-config. 415s Preparing to unpack .../013-fontconfig-config_2.15.0-1.1ubuntu2_s390x.deb ... 415s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 415s Selecting previously unselected package libfontconfig1:s390x. 415s Preparing to unpack .../014-libfontconfig1_2.15.0-1.1ubuntu2_s390x.deb ... 415s Unpacking libfontconfig1:s390x (2.15.0-1.1ubuntu2) ... 415s Selecting previously unselected package libsharpyuv0:s390x. 415s Preparing to unpack .../015-libsharpyuv0_1.4.0-0.1_s390x.deb ... 415s Unpacking libsharpyuv0:s390x (1.4.0-0.1) ... 415s Selecting previously unselected package libaom3:s390x. 415s Preparing to unpack .../016-libaom3_3.11.0~rc1-1_s390x.deb ... 415s Unpacking libaom3:s390x (3.11.0~rc1-1) ... 415s Selecting previously unselected package libheif-plugin-aomdec:s390x. 415s Preparing to unpack .../017-libheif-plugin-aomdec_1.19.3-1_s390x.deb ... 415s Unpacking libheif-plugin-aomdec:s390x (1.19.3-1) ... 415s Selecting previously unselected package libde265-0:s390x. 415s Preparing to unpack .../018-libde265-0_1.0.15-1build4_s390x.deb ... 415s Unpacking libde265-0:s390x (1.0.15-1build4) ... 415s Selecting previously unselected package libheif-plugin-libde265:s390x. 415s Preparing to unpack .../019-libheif-plugin-libde265_1.19.3-1_s390x.deb ... 415s Unpacking libheif-plugin-libde265:s390x (1.19.3-1) ... 415s Selecting previously unselected package libheif1:s390x. 415s Preparing to unpack .../020-libheif1_1.19.3-1_s390x.deb ... 415s Unpacking libheif1:s390x (1.19.3-1) ... 415s Selecting previously unselected package libjbig0:s390x. 415s Preparing to unpack .../021-libjbig0_2.1-6.1ubuntu2_s390x.deb ... 415s Unpacking libjbig0:s390x (2.1-6.1ubuntu2) ... 415s Selecting previously unselected package libjpeg-turbo8:s390x. 415s Preparing to unpack .../022-libjpeg-turbo8_2.1.5-2ubuntu2_s390x.deb ... 415s Unpacking libjpeg-turbo8:s390x (2.1.5-2ubuntu2) ... 415s Selecting previously unselected package libjpeg8:s390x. 415s Preparing to unpack .../023-libjpeg8_8c-2ubuntu11_s390x.deb ... 415s Unpacking libjpeg8:s390x (8c-2ubuntu11) ... 415s Selecting previously unselected package liblcms2-2:s390x. 415s Preparing to unpack .../024-liblcms2-2_2.16-2_s390x.deb ... 415s Unpacking liblcms2-2:s390x (2.16-2) ... 415s Selecting previously unselected package liblqr-1-0:s390x. 415s Preparing to unpack .../025-liblqr-1-0_0.4.2-2.1build2_s390x.deb ... 415s Unpacking liblqr-1-0:s390x (0.4.2-2.1build2) ... 415s Selecting previously unselected package libltdl7:s390x. 415s Preparing to unpack .../026-libltdl7_2.4.7-7build1_s390x.deb ... 415s Unpacking libltdl7:s390x (2.4.7-7build1) ... 415s Selecting previously unselected package libopenjp2-7:s390x. 415s Preparing to unpack .../027-libopenjp2-7_2.5.0-2ubuntu1_s390x.deb ... 415s Unpacking libopenjp2-7:s390x (2.5.0-2ubuntu1) ... 415s Selecting previously unselected package libraw23t64:s390x. 415s Preparing to unpack .../028-libraw23t64_0.21.3-1_s390x.deb ... 415s Unpacking libraw23t64:s390x (0.21.3-1) ... 415s Selecting previously unselected package libdeflate0:s390x. 415s Preparing to unpack .../029-libdeflate0_1.22-1_s390x.deb ... 415s Unpacking libdeflate0:s390x (1.22-1) ... 415s Selecting previously unselected package libwebp7:s390x. 415s Preparing to unpack .../030-libwebp7_1.4.0-0.1_s390x.deb ... 415s Unpacking libwebp7:s390x (1.4.0-0.1) ... 415s Selecting previously unselected package libtiff6:s390x. 415s Preparing to unpack .../031-libtiff6_4.5.1+git230720-4ubuntu4_s390x.deb ... 415s Unpacking libtiff6:s390x (4.5.1+git230720-4ubuntu4) ... 415s Selecting previously unselected package libwebpdemux2:s390x. 415s Preparing to unpack .../032-libwebpdemux2_1.4.0-0.1_s390x.deb ... 415s Unpacking libwebpdemux2:s390x (1.4.0-0.1) ... 415s Selecting previously unselected package libwebpmux3:s390x. 415s Preparing to unpack .../033-libwebpmux3_1.4.0-0.1_s390x.deb ... 415s Unpacking libwebpmux3:s390x (1.4.0-0.1) ... 415s Selecting previously unselected package imagemagick-6-common. 415s Preparing to unpack .../034-imagemagick-6-common_8%3a6.9.13.12+dfsg1-1build1_all.deb ... 415s Unpacking imagemagick-6-common (8:6.9.13.12+dfsg1-1build1) ... 415s Selecting previously unselected package libmagickcore-6.q16-7t64:s390x. 415s Preparing to unpack .../035-libmagickcore-6.q16-7t64_8%3a6.9.13.12+dfsg1-1build1_s390x.deb ... 415s Unpacking libmagickcore-6.q16-7t64:s390x (8:6.9.13.12+dfsg1-1build1) ... 415s Selecting previously unselected package libmagickwand-6.q16-7t64:s390x. 415s Preparing to unpack .../036-libmagickwand-6.q16-7t64_8%3a6.9.13.12+dfsg1-1build1_s390x.deb ... 415s Unpacking libmagickwand-6.q16-7t64:s390x (8:6.9.13.12+dfsg1-1build1) ... 415s Selecting previously unselected package poppler-data. 415s Preparing to unpack .../037-poppler-data_0.4.12-1_all.deb ... 415s Unpacking poppler-data (0.4.12-1) ... 415s Selecting previously unselected package sgml-base. 415s Preparing to unpack .../038-sgml-base_1.31_all.deb ... 415s Unpacking sgml-base (1.31) ... 415s Selecting previously unselected package autoconf. 415s Preparing to unpack .../039-autoconf_2.72-3_all.deb ... 415s Unpacking autoconf (2.72-3) ... 415s Selecting previously unselected package autotools-dev. 415s Preparing to unpack .../040-autotools-dev_20220109.1_all.deb ... 415s Unpacking autotools-dev (20220109.1) ... 415s Selecting previously unselected package automake. 415s Preparing to unpack .../041-automake_1%3a1.16.5-1.3ubuntu1_all.deb ... 415s Unpacking automake (1:1.16.5-1.3ubuntu1) ... 415s Selecting previously unselected package autopoint. 415s Preparing to unpack .../042-autopoint_0.22.5-2_all.deb ... 415s Unpacking autopoint (0.22.5-2) ... 415s Selecting previously unselected package libtcl8.6:s390x. 415s Preparing to unpack .../043-libtcl8.6_8.6.15+dfsg-2_s390x.deb ... 415s Unpacking libtcl8.6:s390x (8.6.15+dfsg-2) ... 415s Selecting previously unselected package libxrender1:s390x. 415s Preparing to unpack .../044-libxrender1_1%3a0.9.10-1.1build1_s390x.deb ... 415s Unpacking libxrender1:s390x (1:0.9.10-1.1build1) ... 415s Selecting previously unselected package libxft2:s390x. 415s Preparing to unpack .../045-libxft2_2.3.6-1build1_s390x.deb ... 415s Unpacking libxft2:s390x (2.3.6-1build1) ... 415s Selecting previously unselected package libxss1:s390x. 415s Preparing to unpack .../046-libxss1_1%3a1.2.3-1build3_s390x.deb ... 415s Unpacking libxss1:s390x (1:1.2.3-1build3) ... 415s Selecting previously unselected package libtk8.6:s390x. 415s Preparing to unpack .../047-libtk8.6_8.6.15-1_s390x.deb ... 415s Unpacking libtk8.6:s390x (8.6.15-1) ... 415s Selecting previously unselected package tk8.6-blt2.5. 415s Preparing to unpack .../048-tk8.6-blt2.5_2.5.3+dfsg-7build1_s390x.deb ... 415s Unpacking tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 415s Selecting previously unselected package blt. 415s Preparing to unpack .../049-blt_2.5.3+dfsg-7build1_s390x.deb ... 415s Unpacking blt (2.5.3+dfsg-7build1) ... 415s Selecting previously unselected package libisl23:s390x. 415s Preparing to unpack .../050-libisl23_0.27-1_s390x.deb ... 415s Unpacking libisl23:s390x (0.27-1) ... 415s Selecting previously unselected package libmpc3:s390x. 415s Preparing to unpack .../051-libmpc3_1.3.1-1build2_s390x.deb ... 415s Unpacking libmpc3:s390x (1.3.1-1build2) ... 415s Selecting previously unselected package cpp-14-s390x-linux-gnu. 415s Preparing to unpack .../052-cpp-14-s390x-linux-gnu_14.2.0-8ubuntu1_s390x.deb ... 415s Unpacking cpp-14-s390x-linux-gnu (14.2.0-8ubuntu1) ... 416s Selecting previously unselected package cpp-14. 416s Preparing to unpack .../053-cpp-14_14.2.0-8ubuntu1_s390x.deb ... 416s Unpacking cpp-14 (14.2.0-8ubuntu1) ... 416s Selecting previously unselected package cpp-s390x-linux-gnu. 416s Preparing to unpack .../054-cpp-s390x-linux-gnu_4%3a14.1.0-2ubuntu1_s390x.deb ... 416s Unpacking cpp-s390x-linux-gnu (4:14.1.0-2ubuntu1) ... 416s Selecting previously unselected package cpp. 416s Preparing to unpack .../055-cpp_4%3a14.1.0-2ubuntu1_s390x.deb ... 416s Unpacking cpp (4:14.1.0-2ubuntu1) ... 416s Selecting previously unselected package libcc1-0:s390x. 416s Preparing to unpack .../056-libcc1-0_14.2.0-8ubuntu1_s390x.deb ... 416s Unpacking libcc1-0:s390x (14.2.0-8ubuntu1) ... 416s Selecting previously unselected package libitm1:s390x. 416s Preparing to unpack .../057-libitm1_14.2.0-8ubuntu1_s390x.deb ... 416s Unpacking libitm1:s390x (14.2.0-8ubuntu1) ... 416s Selecting previously unselected package libasan8:s390x. 416s Preparing to unpack .../058-libasan8_14.2.0-8ubuntu1_s390x.deb ... 416s Unpacking libasan8:s390x (14.2.0-8ubuntu1) ... 416s Selecting previously unselected package libubsan1:s390x. 416s Preparing to unpack .../059-libubsan1_14.2.0-8ubuntu1_s390x.deb ... 416s Unpacking libubsan1:s390x (14.2.0-8ubuntu1) ... 416s Selecting previously unselected package libgcc-14-dev:s390x. 416s Preparing to unpack .../060-libgcc-14-dev_14.2.0-8ubuntu1_s390x.deb ... 416s Unpacking libgcc-14-dev:s390x (14.2.0-8ubuntu1) ... 416s Selecting previously unselected package gcc-14-s390x-linux-gnu. 416s Preparing to unpack .../061-gcc-14-s390x-linux-gnu_14.2.0-8ubuntu1_s390x.deb ... 416s Unpacking gcc-14-s390x-linux-gnu (14.2.0-8ubuntu1) ... 416s Selecting previously unselected package gcc-14. 416s Preparing to unpack .../062-gcc-14_14.2.0-8ubuntu1_s390x.deb ... 416s Unpacking gcc-14 (14.2.0-8ubuntu1) ... 416s Selecting previously unselected package gcc-s390x-linux-gnu. 416s Preparing to unpack .../063-gcc-s390x-linux-gnu_4%3a14.1.0-2ubuntu1_s390x.deb ... 416s Unpacking gcc-s390x-linux-gnu (4:14.1.0-2ubuntu1) ... 416s Selecting previously unselected package gcc. 416s Preparing to unpack .../064-gcc_4%3a14.1.0-2ubuntu1_s390x.deb ... 416s Unpacking gcc (4:14.1.0-2ubuntu1) ... 416s Selecting previously unselected package libstdc++-14-dev:s390x. 416s Preparing to unpack .../065-libstdc++-14-dev_14.2.0-8ubuntu1_s390x.deb ... 416s Unpacking libstdc++-14-dev:s390x (14.2.0-8ubuntu1) ... 416s Selecting previously unselected package g++-14-s390x-linux-gnu. 416s Preparing to unpack .../066-g++-14-s390x-linux-gnu_14.2.0-8ubuntu1_s390x.deb ... 416s Unpacking g++-14-s390x-linux-gnu (14.2.0-8ubuntu1) ... 416s Selecting previously unselected package g++-14. 416s Preparing to unpack .../067-g++-14_14.2.0-8ubuntu1_s390x.deb ... 416s Unpacking g++-14 (14.2.0-8ubuntu1) ... 416s Selecting previously unselected package g++-s390x-linux-gnu. 416s Preparing to unpack .../068-g++-s390x-linux-gnu_4%3a14.1.0-2ubuntu1_s390x.deb ... 416s Unpacking g++-s390x-linux-gnu (4:14.1.0-2ubuntu1) ... 416s Selecting previously unselected package g++. 416s Preparing to unpack .../069-g++_4%3a14.1.0-2ubuntu1_s390x.deb ... 416s Unpacking g++ (4:14.1.0-2ubuntu1) ... 416s Selecting previously unselected package build-essential. 416s Preparing to unpack .../070-build-essential_12.10ubuntu1_s390x.deb ... 416s Unpacking build-essential (12.10ubuntu1) ... 416s Selecting previously unselected package bwa. 416s Preparing to unpack .../071-bwa_0.7.18-1_s390x.deb ... 416s Unpacking bwa (0.7.18-1) ... 416s Selecting previously unselected package libargtable2-0. 416s Preparing to unpack .../072-libargtable2-0_13-2_s390x.deb ... 416s Unpacking libargtable2-0 (13-2) ... 416s Selecting previously unselected package clustalo. 416s Preparing to unpack .../073-clustalo_1.2.4-8build1_s390x.deb ... 416s Unpacking clustalo (1.2.4-8build1) ... 416s Selecting previously unselected package libdebhelper-perl. 416s Preparing to unpack .../074-libdebhelper-perl_13.20ubuntu1_all.deb ... 416s Unpacking libdebhelper-perl (13.20ubuntu1) ... 416s Selecting previously unselected package libtool. 416s Preparing to unpack .../075-libtool_2.4.7-7build1_all.deb ... 416s Unpacking libtool (2.4.7-7build1) ... 416s Selecting previously unselected package dh-autoreconf. 416s Preparing to unpack .../076-dh-autoreconf_20_all.deb ... 416s Unpacking dh-autoreconf (20) ... 416s Selecting previously unselected package libarchive-zip-perl. 416s Preparing to unpack .../077-libarchive-zip-perl_1.68-1_all.deb ... 416s Unpacking libarchive-zip-perl (1.68-1) ... 417s Selecting previously unselected package libfile-stripnondeterminism-perl. 417s Preparing to unpack .../078-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... 417s Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... 417s Selecting previously unselected package dh-strip-nondeterminism. 417s Preparing to unpack .../079-dh-strip-nondeterminism_1.14.0-1_all.deb ... 417s Unpacking dh-strip-nondeterminism (1.14.0-1) ... 417s Selecting previously unselected package debugedit. 417s Preparing to unpack .../080-debugedit_1%3a5.1-1_s390x.deb ... 417s Unpacking debugedit (1:5.1-1) ... 417s Selecting previously unselected package dwz. 417s Preparing to unpack .../081-dwz_0.15-1build6_s390x.deb ... 417s Unpacking dwz (0.15-1build6) ... 417s Selecting previously unselected package gettext. 417s Preparing to unpack .../082-gettext_0.22.5-2_s390x.deb ... 417s Unpacking gettext (0.22.5-2) ... 417s Selecting previously unselected package intltool-debian. 417s Preparing to unpack .../083-intltool-debian_0.35.0+20060710.6_all.deb ... 417s Unpacking intltool-debian (0.35.0+20060710.6) ... 417s Selecting previously unselected package po-debconf. 417s Preparing to unpack .../084-po-debconf_1.0.21+nmu1_all.deb ... 417s Unpacking po-debconf (1.0.21+nmu1) ... 417s Selecting previously unselected package debhelper. 417s Preparing to unpack .../085-debhelper_13.20ubuntu1_all.deb ... 417s Unpacking debhelper (13.20ubuntu1) ... 417s Selecting previously unselected package dh-python. 417s Preparing to unpack .../086-dh-python_6.20241024_all.deb ... 417s Unpacking dh-python (6.20241024) ... 417s Selecting previously unselected package dialign. 417s Preparing to unpack .../087-dialign_2.2.1-13_s390x.deb ... 417s Unpacking dialign (2.2.1-13) ... 417s Selecting previously unselected package xml-core. 417s Preparing to unpack .../088-xml-core_0.19_all.deb ... 417s Unpacking xml-core (0.19) ... 417s Selecting previously unselected package docutils-common. 417s Preparing to unpack .../089-docutils-common_0.21.2+dfsg-2_all.deb ... 417s Unpacking docutils-common (0.21.2+dfsg-2) ... 417s Selecting previously unselected package libcifpp-data. 417s Preparing to unpack .../090-libcifpp-data_7.0.7-3_all.deb ... 417s Unpacking libcifpp-data (7.0.7-3) ... 417s Selecting previously unselected package libcifpp7:s390x. 417s Preparing to unpack .../091-libcifpp7_7.0.7-3_s390x.deb ... 417s Unpacking libcifpp7:s390x (7.0.7-3) ... 417s Selecting previously unselected package dssp. 417s Preparing to unpack .../092-dssp_4.4.10-1_s390x.deb ... 417s Unpacking dssp (4.4.10-1) ... 417s Selecting previously unselected package fonts-font-awesome. 417s Preparing to unpack .../093-fonts-font-awesome_5.0.10+really4.7.0~dfsg-4.1_all.deb ... 417s Unpacking fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... 417s Selecting previously unselected package fonts-lmodern. 417s Preparing to unpack .../094-fonts-lmodern_2.005-1_all.deb ... 417s Unpacking fonts-lmodern (2.005-1) ... 417s Selecting previously unselected package fonts-lyx. 417s Preparing to unpack .../095-fonts-lyx_2.4.2.1-1_all.deb ... 417s Unpacking fonts-lyx (2.4.2.1-1) ... 417s Selecting previously unselected package libgs-common. 417s Preparing to unpack .../096-libgs-common_10.03.1~dfsg1-0ubuntu3_all.deb ... 417s Unpacking libgs-common (10.03.1~dfsg1-0ubuntu3) ... 417s Selecting previously unselected package libgs10-common. 417s Preparing to unpack .../097-libgs10-common_10.03.1~dfsg1-0ubuntu3_all.deb ... 417s Unpacking libgs10-common (10.03.1~dfsg1-0ubuntu3) ... 417s Selecting previously unselected package libavahi-common-data:s390x. 417s Preparing to unpack .../098-libavahi-common-data_0.8-13ubuntu6_s390x.deb ... 417s Unpacking libavahi-common-data:s390x (0.8-13ubuntu6) ... 417s Selecting previously unselected package libavahi-common3:s390x. 417s Preparing to unpack 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.../104-libjbig2dec0_0.20-1build3_s390x.deb ... 417s Unpacking libjbig2dec0:s390x (0.20-1build3) ... 417s Selecting previously unselected package libpaper1:s390x. 417s Preparing to unpack .../105-libpaper1_1.1.29build1_s390x.deb ... 417s Unpacking libpaper1:s390x (1.1.29build1) ... 417s Selecting previously unselected package libice6:s390x. 417s Preparing to unpack .../106-libice6_2%3a1.1.1-1_s390x.deb ... 417s Unpacking libice6:s390x (2:1.1.1-1) ... 417s Selecting previously unselected package libsm6:s390x. 417s Preparing to unpack .../107-libsm6_2%3a1.2.4-1_s390x.deb ... 417s Unpacking libsm6:s390x (2:1.2.4-1) ... 417s Selecting previously unselected package libxt6t64:s390x. 417s Preparing to unpack .../108-libxt6t64_1%3a1.2.1-1.2build1_s390x.deb ... 417s Unpacking libxt6t64:s390x (1:1.2.1-1.2build1) ... 417s Selecting previously unselected package libgs10:s390x. 417s Preparing to unpack .../109-libgs10_10.03.1~dfsg1-0ubuntu3_s390x.deb ... 417s Unpacking libgs10:s390x (10.03.1~dfsg1-0ubuntu3) ... 417s Selecting previously unselected package ghostscript. 417s Preparing to unpack .../110-ghostscript_10.03.1~dfsg1-0ubuntu3_s390x.deb ... 417s Unpacking ghostscript (10.03.1~dfsg1-0ubuntu3) ... 417s Selecting previously unselected package libnetpbm11t64:s390x. 417s Preparing to unpack .../111-libnetpbm11t64_2%3a11.08.01-1_s390x.deb ... 417s Unpacking libnetpbm11t64:s390x (2:11.08.01-1) ... 417s Selecting previously unselected package netpbm. 417s Preparing to unpack .../112-netpbm_2%3a11.08.01-1_s390x.deb ... 417s Unpacking netpbm (2:11.08.01-1) ... 417s Selecting previously unselected package tex-common. 417s Preparing to unpack .../113-tex-common_6.18_all.deb ... 417s Unpacking tex-common (6.18) ... 417s Selecting previously unselected package libpaper-utils. 417s Preparing to unpack .../114-libpaper-utils_1.1.29build1_s390x.deb ... 417s Unpacking libpaper-utils (1.1.29build1) ... 417s Selecting previously unselected package libkpathsea6:s390x. 417s Preparing to unpack .../115-libkpathsea6_2024.20240313.70630+ds-5_s390x.deb ... 417s Unpacking libkpathsea6:s390x (2024.20240313.70630+ds-5) ... 417s Selecting previously unselected package libptexenc1:s390x. 417s Preparing to unpack .../116-libptexenc1_2024.20240313.70630+ds-5_s390x.deb ... 417s Unpacking libptexenc1:s390x (2024.20240313.70630+ds-5) ... 417s Selecting previously unselected package libsynctex2:s390x. 417s Preparing to unpack .../117-libsynctex2_2024.20240313.70630+ds-5_s390x.deb ... 417s Unpacking libsynctex2:s390x (2024.20240313.70630+ds-5) ... 417s Selecting previously unselected package libtexlua53-5:s390x. 417s Preparing to unpack .../118-libtexlua53-5_2024.20240313.70630+ds-5_s390x.deb ... 417s Unpacking libtexlua53-5:s390x (2024.20240313.70630+ds-5) ... 417s Selecting previously unselected package t1utils. 417s Preparing to unpack .../119-t1utils_1.41-4build3_s390x.deb ... 417s Unpacking t1utils (1.41-4build3) ... 417s Selecting previously unselected package libpixman-1-0:s390x. 417s Preparing to unpack .../120-libpixman-1-0_0.44.0-3_s390x.deb ... 417s Unpacking libpixman-1-0:s390x (0.44.0-3) ... 417s Selecting previously unselected package libxcb-render0:s390x. 417s Preparing to unpack .../121-libxcb-render0_1.17.0-2_s390x.deb ... 417s Unpacking libxcb-render0:s390x (1.17.0-2) ... 417s Selecting previously unselected package libxcb-shm0:s390x. 417s Preparing to unpack .../122-libxcb-shm0_1.17.0-2_s390x.deb ... 417s Unpacking libxcb-shm0:s390x (1.17.0-2) ... 417s Selecting previously unselected package libcairo2:s390x. 417s Preparing to unpack .../123-libcairo2_1.18.2-2_s390x.deb ... 417s Unpacking libcairo2:s390x (1.18.2-2) ... 417s Selecting previously unselected package libgraphite2-3:s390x. 417s Preparing to unpack .../124-libgraphite2-3_1.3.14-2ubuntu1_s390x.deb ... 417s Unpacking libgraphite2-3:s390x (1.3.14-2ubuntu1) ... 418s Selecting previously unselected package libharfbuzz0b:s390x. 418s Preparing to unpack .../125-libharfbuzz0b_10.0.1-1_s390x.deb ... 418s Unpacking libharfbuzz0b:s390x (10.0.1-1) ... 418s Selecting previously unselected package libmpfi0:s390x. 418s Preparing to unpack .../126-libmpfi0_1.5.4+ds-4_s390x.deb ... 418s Unpacking libmpfi0:s390x (1.5.4+ds-4) ... 418s Selecting previously unselected package libpotrace0:s390x. 418s Preparing to unpack .../127-libpotrace0_1.16-2build1_s390x.deb ... 418s Unpacking libpotrace0:s390x (1.16-2build1) ... 418s Selecting previously unselected package libteckit0:s390x. 418s Preparing to unpack .../128-libteckit0_2.5.12+ds1-1_s390x.deb ... 418s Unpacking libteckit0:s390x (2.5.12+ds1-1) ... 418s Selecting previously unselected package libxmu6:s390x. 418s Preparing to unpack .../129-libxmu6_2%3a1.1.3-3build2_s390x.deb ... 418s Unpacking libxmu6:s390x (2:1.1.3-3build2) ... 418s Selecting previously unselected package libxpm4:s390x. 418s Preparing to unpack .../130-libxpm4_1%3a3.5.17-1build2_s390x.deb ... 418s Unpacking libxpm4:s390x (1:3.5.17-1build2) ... 418s Selecting previously unselected package libxaw7:s390x. 418s Preparing to unpack .../131-libxaw7_2%3a1.0.16-1_s390x.deb ... 418s Unpacking libxaw7:s390x (2:1.0.16-1) ... 418s Selecting previously unselected package libxi6:s390x. 418s Preparing to unpack .../132-libxi6_2%3a1.8.2-1_s390x.deb ... 418s Unpacking libxi6:s390x (2:1.8.2-1) ... 418s Selecting previously unselected package libzzip-0-13t64:s390x. 418s Preparing to unpack .../133-libzzip-0-13t64_0.13.72+dfsg.1-1.2build1_s390x.deb ... 418s Unpacking libzzip-0-13t64:s390x (0.13.72+dfsg.1-1.2build1) ... 418s Selecting previously unselected package texlive-binaries. 418s Preparing to unpack .../134-texlive-binaries_2024.20240313.70630+ds-5_s390x.deb ... 418s Unpacking texlive-binaries (2024.20240313.70630+ds-5) ... 418s Selecting previously unselected package xdg-utils. 418s Preparing to unpack .../135-xdg-utils_1.2.1-0ubuntu1_all.deb ... 418s Unpacking xdg-utils (1.2.1-0ubuntu1) ... 418s Selecting previously unselected package texlive-base. 418s Preparing to unpack .../136-texlive-base_2024.20241102-1_all.deb ... 418s Unpacking texlive-base (2024.20241102-1) ... 419s Selecting previously unselected package hicolor-icon-theme. 419s Preparing to unpack .../137-hicolor-icon-theme_0.18-1_all.deb ... 419s Unpacking hicolor-icon-theme (0.18-1) ... 419s Selecting previously unselected package imagemagick-6.q16. 419s Preparing to unpack .../138-imagemagick-6.q16_8%3a6.9.13.12+dfsg1-1build1_s390x.deb ... 419s Unpacking imagemagick-6.q16 (8:6.9.13.12+dfsg1-1build1) ... 419s Selecting previously unselected package imagemagick. 419s Preparing to unpack .../139-imagemagick_8%3a6.9.13.12+dfsg1-1build1_s390x.deb ... 419s Unpacking imagemagick (8:6.9.13.12+dfsg1-1build1) ... 419s Selecting previously unselected package hevea. 419s Preparing to unpack .../140-hevea_2.36-2_s390x.deb ... 419s Unpacking hevea (2.36-2) ... 419s Selecting previously unselected package libapache-pom-java. 419s Preparing to unpack .../141-libapache-pom-java_33-2_all.deb ... 419s Unpacking libapache-pom-java (33-2) ... 419s Selecting previously unselected package libblas3:s390x. 419s Preparing to unpack .../142-libblas3_3.12.0-3build2_s390x.deb ... 419s Unpacking libblas3:s390x (3.12.0-3build2) ... 419s Selecting previously unselected package libcommons-parent-java. 419s Preparing to unpack .../143-libcommons-parent-java_56-1_all.deb ... 419s Unpacking libcommons-parent-java (56-1) ... 419s Selecting previously unselected package libcommons-logging-java. 419s Preparing to unpack .../144-libcommons-logging-java_1.3.0-1ubuntu1_all.deb ... 419s Unpacking libcommons-logging-java (1.3.0-1ubuntu1) ... 419s Selecting previously unselected package libexpat1-dev:s390x. 419s Preparing to unpack .../145-libexpat1-dev_2.6.2-2_s390x.deb ... 419s Unpacking libexpat1-dev:s390x (2.6.2-2) ... 419s Selecting previously unselected package libgfortran5:s390x. 419s Preparing to unpack .../146-libgfortran5_14.2.0-8ubuntu1_s390x.deb ... 419s Unpacking libgfortran5:s390x (14.2.0-8ubuntu1) ... 419s Selecting previously unselected package libimagequant0:s390x. 419s Preparing to unpack .../147-libimagequant0_2.18.0-1build1_s390x.deb ... 419s Unpacking libimagequant0:s390x (2.18.0-1build1) ... 419s Selecting previously unselected package libjs-jquery. 419s Preparing to unpack .../148-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 419s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 419s Selecting previously unselected package libjs-jquery-ui. 419s Preparing to unpack .../149-libjs-jquery-ui_1.13.2+dfsg-1_all.deb ... 419s Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ... 419s Selecting previously unselected package libjs-underscore. 419s Preparing to unpack .../150-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 419s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 419s Selecting previously unselected package libjs-sphinxdoc. 419s Preparing to unpack .../151-libjs-sphinxdoc_7.4.7-4_all.deb ... 419s Unpacking libjs-sphinxdoc (7.4.7-4) ... 419s Selecting previously unselected package libjson-perl. 419s Preparing to unpack .../152-libjson-perl_4.10000-1_all.deb ... 419s Unpacking libjson-perl (4.10000-1) ... 419s Selecting previously unselected package liblapack3:s390x. 419s Preparing to unpack .../153-liblapack3_3.12.0-3build2_s390x.deb ... 419s Unpacking liblapack3:s390x (3.12.0-3build2) ... 419s Selecting previously unselected package liblbfgsb0:s390x. 419s Preparing to unpack .../154-liblbfgsb0_3.0+dfsg.4-1build1_s390x.deb ... 419s Unpacking liblbfgsb0:s390x (3.0+dfsg.4-1build1) ... 419s Selecting previously unselected package libmbedcrypto7t64:s390x. 419s Preparing to unpack .../155-libmbedcrypto7t64_2.28.8-1_s390x.deb ... 419s Unpacking libmbedcrypto7t64:s390x (2.28.8-1) ... 419s Selecting previously unselected package libmbedx509-1t64:s390x. 419s Preparing to unpack .../156-libmbedx509-1t64_2.28.8-1_s390x.deb ... 419s Unpacking libmbedx509-1t64:s390x (2.28.8-1) ... 419s Selecting previously unselected package libmbedtls14t64:s390x. 419s Preparing to unpack .../157-libmbedtls14t64_2.28.8-1_s390x.deb ... 419s Unpacking libmbedtls14t64:s390x (2.28.8-1) ... 419s Selecting previously unselected package mysql-common. 419s Preparing to unpack .../158-mysql-common_5.8+1.1.1_all.deb ... 419s Unpacking mysql-common (5.8+1.1.1) ... 419s Selecting previously unselected package libmysqlclient21:s390x. 419s Preparing to unpack .../159-libmysqlclient21_8.0.40-1_s390x.deb ... 419s Unpacking libmysqlclient21:s390x (8.0.40-1) ... 419s Selecting previously unselected package zlib1g-dev:s390x. 419s Preparing to unpack .../160-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1ubuntu1_s390x.deb ... 419s Unpacking zlib1g-dev:s390x (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 419s Selecting previously unselected package libpython3.12-dev:s390x. 419s Preparing to unpack .../161-libpython3.12-dev_3.12.7-3_s390x.deb ... 419s Unpacking libpython3.12-dev:s390x (3.12.7-3) ... 420s Selecting previously unselected package libpython3-dev:s390x. 420s Preparing to unpack .../162-libpython3-dev_3.12.6-0ubuntu1_s390x.deb ... 420s Unpacking libpython3-dev:s390x (3.12.6-0ubuntu1) ... 420s Selecting previously unselected package libpython3-all-dev:s390x. 420s Preparing to unpack .../163-libpython3-all-dev_3.12.6-0ubuntu1_s390x.deb ... 420s Unpacking libpython3-all-dev:s390x (3.12.6-0ubuntu1) ... 420s Selecting previously unselected package libqhull-r8.0:s390x. 420s Preparing to unpack .../164-libqhull-r8.0_2020.2-6build1_s390x.deb ... 420s Unpacking libqhull-r8.0:s390x (2020.2-6build1) ... 420s Selecting previously unselected package libraqm0:s390x. 420s Preparing to unpack .../165-libraqm0_0.10.1-1build1_s390x.deb ... 420s Unpacking libraqm0:s390x (0.10.1-1build1) ... 420s Selecting previously unselected package libxslt1.1:s390x. 420s Preparing to unpack .../166-libxslt1.1_1.1.39-0exp1ubuntu1_s390x.deb ... 420s Unpacking libxslt1.1:s390x (1.1.39-0exp1ubuntu1) ... 420s Selecting previously unselected package mafft. 420s Preparing to unpack .../167-mafft_7.505-1_s390x.deb ... 420s Unpacking mafft (7.505-1) ... 420s Selecting previously unselected package ncbi-data. 420s Preparing to unpack .../168-ncbi-data_6.1.20170106+dfsg2-5_all.deb ... 420s Unpacking ncbi-data (6.1.20170106+dfsg2-5) ... 420s Selecting previously unselected package ncbi-blast+. 420s Preparing to unpack .../169-ncbi-blast+_2.16.0+ds-6_s390x.deb ... 420s Unpacking ncbi-blast+ (2.16.0+ds-6) ... 420s Selecting previously unselected package phylip. 420s Preparing to unpack .../170-phylip_1%3a3.697+dfsg-4build1_s390x.deb ... 420s Unpacking phylip (1:3.697+dfsg-4build1) ... 420s Selecting previously unselected package prank. 420s Preparing to unpack .../171-prank_0.0.170427+dfsg-3_s390x.deb ... 420s Unpacking prank (0.0.170427+dfsg-3) ... 420s Selecting previously unselected package preview-latex-style. 420s Preparing to unpack .../172-preview-latex-style_13.2-1_all.deb ... 420s Unpacking preview-latex-style (13.2-1) ... 420s Selecting previously unselected package probcons. 420s Preparing to unpack .../173-probcons_1.12-14_s390x.deb ... 420s Unpacking probcons (1.12-14) ... 420s Selecting previously unselected package python-biopython-doc. 420s Preparing to unpack .../174-python-biopython-doc_1.84+dfsg-4build1_all.deb ... 420s Unpacking python-biopython-doc (1.84+dfsg-4build1) ... 420s Selecting previously unselected package python-matplotlib-data. 420s Preparing to unpack .../175-python-matplotlib-data_3.8.3-3_all.deb ... 420s Unpacking python-matplotlib-data (3.8.3-3) ... 420s Selecting previously unselected package python3-all. 420s Preparing to unpack .../176-python3-all_3.12.6-0ubuntu1_s390x.deb ... 420s Unpacking python3-all (3.12.6-0ubuntu1) ... 420s Selecting previously unselected package python3.12-dev. 420s Preparing to unpack .../177-python3.12-dev_3.12.7-3_s390x.deb ... 420s Unpacking python3.12-dev (3.12.7-3) ... 420s Selecting previously unselected package python3-dev. 420s Preparing to unpack .../178-python3-dev_3.12.6-0ubuntu1_s390x.deb ... 420s Unpacking python3-dev (3.12.6-0ubuntu1) ... 420s Selecting previously unselected package python3-all-dev. 420s Preparing to unpack .../179-python3-all-dev_3.12.6-0ubuntu1_s390x.deb ... 420s Unpacking python3-all-dev (3.12.6-0ubuntu1) ... 420s Selecting previously unselected package python3-appdirs. 420s Preparing to unpack .../180-python3-appdirs_1.4.4-4_all.deb ... 420s Unpacking python3-appdirs (1.4.4-4) ... 421s Selecting previously unselected package python3-numpy. 421s Preparing to unpack .../181-python3-numpy_1%3a1.26.4+ds-11build1_s390x.deb ... 421s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 421s Selecting previously unselected package python3.12-tk. 421s Preparing to unpack .../182-python3.12-tk_3.12.7-3_s390x.deb ... 421s Unpacking python3.12-tk (3.12.7-3) ... 421s Selecting previously unselected package python3-tk:s390x. 421s Preparing to unpack .../183-python3-tk_3.12.6-1ubuntu1_s390x.deb ... 421s Unpacking python3-tk:s390x (3.12.6-1ubuntu1) ... 421s Selecting previously unselected package python3-pil.imagetk:s390x. 421s Preparing to unpack .../184-python3-pil.imagetk_10.4.0-1ubuntu1_s390x.deb ... 421s Unpacking python3-pil.imagetk:s390x (10.4.0-1ubuntu1) ... 421s Selecting previously unselected package python3-pil:s390x. 421s Preparing to unpack .../185-python3-pil_10.4.0-1ubuntu1_s390x.deb ... 421s Unpacking python3-pil:s390x (10.4.0-1ubuntu1) ... 421s Selecting previously unselected package python3-cairo. 421s Preparing to unpack .../186-python3-cairo_1.26.1-2_s390x.deb ... 421s Unpacking python3-cairo (1.26.1-2) ... 421s Selecting previously unselected package python3-freetype. 421s Preparing to unpack .../187-python3-freetype_2.5.1-1_all.deb ... 421s Unpacking python3-freetype (2.5.1-1) ... 421s Selecting previously unselected package python3-rlpycairo. 421s Preparing to unpack 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python3-matplotlib (3.8.3-3) ... 422s Selecting previously unselected package python3-msgpack. 422s Preparing to unpack .../216-python3-msgpack_1.0.3-3build2_s390x.deb ... 422s Unpacking python3-msgpack (1.0.3-3build2) ... 422s Selecting previously unselected package python3-mmtf. 422s Preparing to unpack .../217-python3-mmtf_1.1.3-1_all.deb ... 422s Unpacking python3-mmtf (1.1.3-1) ... 422s Selecting previously unselected package python3-mysqldb. 422s Preparing to unpack .../218-python3-mysqldb_1.4.6-2build4_s390x.deb ... 422s Unpacking python3-mysqldb (1.4.6-2build4) ... 422s Selecting previously unselected package python3-networkx. 422s Preparing to unpack .../219-python3-networkx_3.2.1-4ubuntu1_all.deb ... 422s Unpacking python3-networkx (3.2.1-4ubuntu1) ... 422s Selecting previously unselected package sphinx-common. 422s Preparing to unpack .../220-sphinx-common_7.4.7-4_all.deb ... 422s Unpacking sphinx-common (7.4.7-4) ... 422s Selecting previously unselected package python3-alabaster. 422s Preparing to unpack .../221-python3-alabaster_0.7.16-0.1_all.deb ... 422s Unpacking python3-alabaster (0.7.16-0.1) ... 422s Selecting previously unselected package python3-snowballstemmer. 422s Preparing to unpack .../222-python3-snowballstemmer_2.2.0-4build1_all.deb ... 422s Unpacking python3-snowballstemmer (2.2.0-4build1) ... 422s Selecting previously unselected package python3-sphinx. 422s Preparing to unpack .../223-python3-sphinx_7.4.7-4_all.deb ... 422s Unpacking python3-sphinx (7.4.7-4) ... 422s Selecting previously unselected package python3-tabulate. 422s Preparing to unpack .../224-python3-tabulate_0.9.0-1_all.deb ... 422s Unpacking python3-tabulate (0.9.0-1) ... 422s Selecting previously unselected package python3-numpydoc. 422s Preparing to unpack .../225-python3-numpydoc_1.6.0-2_all.deb ... 422s Unpacking python3-numpydoc (1.6.0-2) ... 422s Selecting previously unselected package python3-rdflib. 422s Preparing to unpack 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(0) ... 426s Setting up dh-python (6.20241024) ... 426s Setting up libgraphite2-3:s390x (1.3.14-2ubuntu1) ... 426s Setting up liblcms2-2:s390x (2.16-2) ... 426s Setting up ncbi-data (6.1.20170106+dfsg2-5) ... 426s Setting up libpixman-1-0:s390x (0.44.0-3) ... 426s Setting up libsharpyuv0:s390x (1.4.0-0.1) ... 426s Setting up libpaper1:s390x (1.1.29build1) ... 426s 426s Creating config file /etc/papersize with new version 426s Setting up libaom3:s390x (3.11.0~rc1-1) ... 426s Setting up mysql-common (5.8+1.1.1) ... 426s update-alternatives: using /etc/mysql/my.cnf.fallback to provide /etc/mysql/my.cnf (my.cnf) in auto mode 426s Setting up libmysqlclient21:s390x (8.0.40-1) ... 426s Setting up imagemagick-6-common (8:6.9.13.12+dfsg1-1build1) ... 426s Setting up fonts-lato (2.015-1) ... 426s Setting up libxpm4:s390x (1:3.5.17-1build2) ... 426s Setting up hicolor-icon-theme (0.18-1) ... 426s Setting up libxi6:s390x (2:1.8.2-1) ... 426s Setting up probcons (1.12-14) ... 426s Setting up libmbedcrypto7t64:s390x (2.28.8-1) ... 426s Setting up libxrender1:s390x (1:0.9.10-1.1build1) ... 426s Setting up python3-lz4 (4.0.2+dfsg-1build4) ... 426s Setting up libxcb-render0:s390x (1.17.0-2) ... 426s Setting up python3-defusedxml (0.7.1-2) ... 427s Setting up mafft (7.505-1) ... 427s Setting up libarchive-zip-perl (1.68-1) ... 427s Setting up bwa (0.7.18-1) ... 427s Setting up python3-alabaster (0.7.16-0.1) ... 427s Setting up fonts-lyx (2.4.2.1-1) ... 427s Setting up libijs-0.35:s390x (0.35-15.1build1) ... 427s Setting up libdebhelper-perl (13.20ubuntu1) ... 427s Setting up libgs-common (10.03.1~dfsg1-0ubuntu3) ... 427s Setting up libfontbox-java (1:1.8.16-5) ... 427s Setting up phylip (1:3.697+dfsg-4build1) ... 427s Setting up x11-common (1:7.7+23ubuntu3) ... 427s Setting up libdeflate0:s390x (1.22-1) ... 427s Setting up python3-tabulate (0.9.0-1) ... 427s Setting up m4 (1.4.19-4build1) ... 427s Setting up libqhull-r8.0:s390x (2020.2-6build1) ... 427s Setting up python3-all 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429s 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 429s Setting up python3-packaging (24.1-1) ... 429s Setting up libexpat1-dev:s390x (2.6.2-2) ... 429s Setting up libzzip-0-13t64:s390x (0.13.72+dfsg.1-1.2build1) ... 429s Setting up libfreetype6:s390x (2.13.3+dfsg-1) ... 429s Setting up libjbig2dec0:s390x (0.20-1build3) ... 429s Setting up python3-snowballstemmer (2.2.0-4build1) ... 429s Setting up libteckit0:s390x (2.5.12+ds1-1) ... 429s Setting up python3-brotli (1.1.0-2build2) ... 429s Setting up libapache-pom-java (33-2) ... 429s Setting up libavahi-common-data:s390x (0.8-13ubuntu6) ... 429s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 429s Setting up t1utils (1.41-4build3) ... 429s Setting up python3-cycler (0.12.1-1) ... 429s Setting up libtexlua53-5:s390x (2024.20240313.70630+ds-5) ... 429s Setting up libimagequant0:s390x (2.18.0-1build1) ... 429s Setting up fonts-dejavu-mono (2.37-8) ... 429s Setting up python3-kiwisolver (1.4.7-2build1) ... 429s Setting up libmpc3:s390x (1.3.1-1build2) ... 429s Setting up libidn12:s390x (1.42-2) ... 429s Setting up libtcl8.6:s390x (8.6.15+dfsg-2) ... 429s Setting up autopoint (0.22.5-2) ... 429s Setting up libmpfi0:s390x (1.5.4+ds-4) ... 429s Setting up fonts-dejavu-core (2.37-8) ... 429s Setting up wise-data (2.4.1-25) ... 429s Setting up libjpeg-turbo8:s390x (2.1.5-2ubuntu2) ... 429s Setting up libltdl7:s390x (2.4.7-7build1) ... 429s Setting up libfftw3-double3:s390x (3.3.10-1ubuntu4) ... 429s Setting up libcifpp-data (7.0.7-3) ... 429s Setting up libkpathsea6:s390x (2024.20240313.70630+ds-5) ... 429s Setting up libgfortran5:s390x (14.2.0-8ubuntu1) ... 429s Setting up autoconf (2.72-3) ... 429s Setting up libwebp7:s390x (1.4.0-0.1) ... 429s Setting up libubsan1:s390x (14.2.0-8ubuntu1) ... 429s Setting up zlib1g-dev:s390x (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 429s Setting up dwz (0.15-1build6) ... 429s Setting up liblqr-1-0:s390x (0.4.2-2.1build2) ... 429s Setting up python3-rdflib (7.1.1-2) ... 430s Setting up libasan8:s390x (14.2.0-8ubuntu1) ... 430s Setting up libjson-perl (4.10000-1) ... 430s Setting up libxslt1.1:s390x (1.1.39-0exp1ubuntu1) ... 430s Setting up debugedit (1:5.1-1) ... 430s Setting up fonts-lmodern (2.005-1) ... 430s Setting up libopenjp2-7:s390x (2.5.0-2ubuntu1) ... 430s Setting up libharfbuzz0b:s390x (10.0.1-1) ... 430s Setting up python3-dateutil (2.9.0-2) ... 430s Setting up fasttree (2.1.11-2) ... 430s Setting up sgml-base (1.31) ... 430s Setting up python3-msgpack (1.0.3-3build2) ... 430s Setting up libxss1:s390x (1:1.2.3-1build3) ... 430s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 430s Setting up python3-mpmath (1.3.0-1) ... 431s Setting up libisl23:s390x (0.27-1) ... 431s Setting up libde265-0:s390x (1.0.15-1build4) ... 431s Setting up python-matplotlib-data (3.8.3-3) ... 431s Setting up libwebpmux3:s390x (1.4.0-0.1) ... 431s Setting up python3-appdirs (1.4.4-4) ... 431s Setting up dialign (2.2.1-13) ... 431s Setting up fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... 431s Setting up sphinx-rtd-theme-common (3.0.1+dfsg-1) ... 431s Setting up xdg-utils (1.2.1-0ubuntu1) ... 431s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode 431s Setting up libcc1-0:s390x (14.2.0-8ubuntu1) ... 431s Setting up libitm1:s390x (14.2.0-8ubuntu1) ... 431s Setting up libsynctex2:s390x (2024.20240313.70630+ds-5) ... 431s Setting up prank (0.0.170427+dfsg-3) ... 431s Setting up libargtable2-0 (13-2) ... 431s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 431s Setting up python3-imagesize (1.4.1-1) ... 431s Setting up libpotrace0:s390x (1.16-2build1) ... 431s Setting up libjpeg8:s390x (8c-2ubuntu11) ... 431s Setting up automake (1:1.16.5-1.3ubuntu1) ... 431s update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode 431s Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... 431s Setting up python3-sympy (1.13.3-1) ... 437s Setting up libice6:s390x (2:1.1.1-1) ... 437s Setting up flex (2.6.4-8.2build1) ... 437s Setting up liblapack3:s390x (3.12.0-3build2) ... 437s 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 437s Setting up gettext (0.22.5-2) ... 437s Setting up libmbedx509-1t64:s390x (2.28.8-1) ... 437s Setting up libpdfbox-java (1:1.8.16-5) ... 437s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 437s Setting up wise (2.4.1-25) ... 437s Setting up preview-latex-style (13.2-1) ... 437s Setting up libwebpdemux2:s390x (1.4.0-0.1) ... 437s Setting up libcommons-parent-java (56-1) ... 437s Setting up libavahi-common3:s390x (0.8-13ubuntu6) ... 437s Setting up libcommons-logging-java (1.3.0-1ubuntu1) ... 437s Setting up libcifpp7:s390x (7.0.7-3) ... 437s Setting up libpython3.12-dev:s390x (3.12.7-3) ... 437s Setting up clustalo (1.2.4-8build1) ... 437s Setting up dssp (4.4.10-1) ... 437s Setting up python3-freetype (2.5.1-1) ... 437s Setting up xfonts-utils (1:7.7+7) ... 437s Setting up intltool-debian (0.35.0+20060710.6) ... 437s Setting up python3-fs (2.4.16-4) ... 438s Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... 438s Setting up libptexenc1:s390x (2024.20240313.70630+ds-5) ... 438s Setting up libraqm0:s390x (0.10.1-1build1) ... 438s Setting up python3.12-dev (3.12.7-3) ... 438s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 439s Setting up libjs-sphinxdoc (7.4.7-4) ... 439s Setting up cpp-14-s390x-linux-gnu (14.2.0-8ubuntu1) ... 439s Setting up libraw23t64:s390x (0.21.3-1) ... 439s Setting up cpp-14 (14.2.0-8ubuntu1) ... 439s Setting up dh-strip-nondeterminism (1.14.0-1) ... 439s Setting up libmbedtls14t64:s390x (2.28.8-1) ... 439s Setting up python3-lxml:s390x (5.3.0-1) ... 440s Setting up python-biopython-doc (1.84+dfsg-4build1) ... 440s Setting up libtiff6:s390x (4.5.1+git230720-4ubuntu4) ... 440s Setting up xml-core (0.19) ... 440s Setting up python3-contourpy (1.3.0-2) ... 440s Setting up libfontconfig1:s390x (2.15.0-1.1ubuntu2) ... 440s Setting up libgcc-14-dev:s390x (14.2.0-8ubuntu1) ... 440s Setting up libstdc++-14-dev:s390x (14.2.0-8ubuntu1) ... 440s Setting up libsm6:s390x (2:1.2.4-1) ... 440s Setting up libavahi-client3:s390x (0.8-13ubuntu6) ... 440s Setting up liblbfgsb0:s390x (3.0+dfsg.4-1build1) ... 440s Setting up libxft2:s390x (2.3.6-1build1) ... 440s Setting up python3-scipy (1.13.1-5) ... 443s Setting up libpython3-dev:s390x (3.12.6-0ubuntu1) ... 443s Setting up cpp-s390x-linux-gnu (4:14.1.0-2ubuntu1) ... 443s Setting up po-debconf (1.0.21+nmu1) ... 443s Setting up libtk8.6:s390x (8.6.15-1) ... 443s Setting up python3.12-tk (3.12.7-3) ... 443s Setting up python3-mmtf (1.1.3-1) ... 443s Setting up fonts-urw-base35 (20200910-8) ... 443s Setting up libcairo2:s390x (1.18.2-2) ... 443s Setting up ncbi-blast+ (2.16.0+ds-6) ... 443s Setting up python3-pil:s390x (10.4.0-1ubuntu1) ... 444s Setting up gcc-14-s390x-linux-gnu (14.2.0-8ubuntu1) ... 444s Setting up gcc-s390x-linux-gnu (4:14.1.0-2ubuntu1) ... 444s Setting up libpython3-all-dev:s390x (3.12.6-0ubuntu1) ... 444s Setting up sphinx-common (7.4.7-4) ... 444s Setting up python3-dev (3.12.6-0ubuntu1) ... 444s Setting up libxt6t64:s390x (1:1.2.1-1.2build1) ... 444s Setting up g++-14-s390x-linux-gnu (14.2.0-8ubuntu1) ... 444s Setting up netpbm (2:11.08.01-1) ... 444s Setting up cpp (4:14.1.0-2ubuntu1) ... 444s Setting up libcups2t64:s390x (2.4.10-1ubuntu2) ... 444s Setting up python3-all-dev (3.12.6-0ubuntu1) ... 444s Setting up libgs10-common (10.03.1~dfsg1-0ubuntu3) ... 444s Setting up tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 444s Setting up libxmu6:s390x (2:1.1.3-3build2) ... 444s Setting up python3-cairo (1.26.1-2) ... 444s Setting up blt (2.5.3+dfsg-7build1) ... 444s Setting up python3-tk:s390x (3.12.6-1ubuntu1) ... 444s Setting up g++-s390x-linux-gnu (4:14.1.0-2ubuntu1) ... 444s Setting up libxaw7:s390x (2:1.0.16-1) ... 444s Setting up gcc-14 (14.2.0-8ubuntu1) ... 444s Setting up python3-pil.imagetk:s390x (10.4.0-1ubuntu1) ... 444s Setting up python3-rlpycairo (0.3.0-3) ... 444s Setting up python3-reportlab (4.2.5-1) ... 445s Setting up texlive-binaries (2024.20240313.70630+ds-5) ... 445s update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode 445s update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode 445s Setting up g++-14 (14.2.0-8ubuntu1) ... 445s Setting up texlive-base (2024.20241102-1) ... 445s tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps 445s tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg 445s tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper 446s tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex 446s Setting up libgs10:s390x (10.03.1~dfsg1-0ubuntu3) ... 446s Setting up libtool (2.4.7-7build1) ... 446s Setting up ghostscript (10.03.1~dfsg1-0ubuntu3) ... 446s Setting up gcc (4:14.1.0-2ubuntu1) ... 446s Setting up dh-autoreconf (20) ... 446s Setting up texlive-latex-base (2024.20241102-1) ... 446s Setting up texlive-latex-recommended (2024.20241102-1) ... 446s Setting up texlive-pictures (2024.20241102-1) ... 446s Setting up g++ (4:14.1.0-2ubuntu1) ... 446s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 446s Setting up texlive-fonts-recommended (2024.20241102-1) ... 446s Setting up build-essential (12.10ubuntu1) ... 446s Setting up debhelper (13.20ubuntu1) ... 446s Setting up texlive-latex-extra (2024.20241102-1) ... 446s Setting up python3-ufolib2 (0.16.1+dfsg1-1) ... 446s Setting up libheif-plugin-aomdec:s390x (1.19.3-1) ... 446s Setting up libheif-plugin-libde265:s390x (1.19.3-1) ... 446s Setting up libheif1:s390x (1.19.3-1) ... 446s Setting up libmagickcore-6.q16-7t64:s390x (8:6.9.13.12+dfsg1-1build1) ... 446s Setting up python3-fonttools (4.46.0-1build2) ... 447s Setting up libmagickwand-6.q16-7t64:s390x (8:6.9.13.12+dfsg1-1build1) ... 447s Setting up imagemagick-6.q16 (8:6.9.13.12+dfsg1-1build1) ... 447s update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare (compare) in auto mode 447s update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare-im6 (compare-im6) in auto mode 447s update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate (animate) in auto mode 447s update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate-im6 (animate-im6) in auto mode 447s update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert (convert) in auto mode 447s update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert-im6 (convert-im6) in auto mode 447s update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite (composite) in auto mode 447s update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite-im6 (composite-im6) in auto mode 447s update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure (conjure) in auto mode 447s update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure-im6 (conjure-im6) in auto mode 447s update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import (import) in auto mode 447s update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import-im6 (import-im6) in auto mode 447s update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify (identify) in auto mode 447s update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify-im6 (identify-im6) in auto mode 447s update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream (stream) in auto mode 447s update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream-im6 (stream-im6) in auto mode 447s update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display (display) in auto mode 447s update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display-im6 (display-im6) in auto mode 447s update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage (montage) in auto mode 447s update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage-im6 (montage-im6) in auto mode 447s update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify (mogrify) in auto mode 447s update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify-im6 (mogrify-im6) in auto mode 447s Setting up python3-matplotlib (3.8.3-3) ... 449s Setting up hevea (2.36-2) ... 449s Setting up imagemagick (8:6.9.13.12+dfsg1-1build1) ... 449s Processing triggers for install-info (7.1.1-1) ... 449s Processing triggers for libc-bin (2.40-1ubuntu3) ... 449s Processing triggers for man-db (2.12.1-3) ... 449s Processing triggers for sgml-base (1.31) ... 449s Setting up docutils-common (0.21.2+dfsg-2) ... 449s Setting up w3c-sgml-lib (1.3-3) ... 469s Setting up python3-biopython (1.84+dfsg-4build1) ... 470s Setting up python3-biopython-sql (1.84+dfsg-4build1) ... 470s Processing triggers for sgml-base (1.31) ... 470s Setting up python3-docutils (0.21.2+dfsg-2) ... 471s Setting up python3-sphinx (7.4.7-4) ... 471s Setting up python3-sphinxcontrib.jquery (4.1-5) ... 471s Setting up python3-numpydoc (1.6.0-2) ... 471s Setting up python3-sphinx-rtd-theme (3.0.1+dfsg-1) ... 472s Setting up autopkgtest-satdep (0) ... 472s Processing triggers for tex-common (6.18) ... 472s Running updmap-sys. This may take some time... done. 472s Running mktexlsr /var/lib/texmf ... done. 472s Building format(s) --all. 540s This may take some time... done. 545s (Reading database ... 100292 files and directories currently installed.) 545s Removing autopkgtest-satdep (0) ... 562s autopkgtest [21:37:58]: test full_suite: sh debian/tests/run-unit-test 562s autopkgtest [21:37:58]: test full_suite: [----------------------- 562s cp: cannot stat '/usr/share/doc/python-biopython-doc/Doc/Tutorial': No such file or directory 562s cp: cannot stat '/usr/share/doc/python-biopython-doc/Doc/examples': No such file or directory 563s mkdir: created directory 'Bio' 563s mkdir: created directory 'Bio/Align' 563s mkdir: created directory 'Bio/Align/substitution_matrices' 563s mkdir: created directory 'Bio/Align/substitution_matrices/data/' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER22' -> 'Bio/Align/substitution_matrices/data/BENNER22' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER6' -> 'Bio/Align/substitution_matrices/data/BENNER6' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER74' -> 'Bio/Align/substitution_matrices/data/BENNER74' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLASTN' -> 'Bio/Align/substitution_matrices/data/BLASTN' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLASTP' -> 'Bio/Align/substitution_matrices/data/BLASTP' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM45' -> 'Bio/Align/substitution_matrices/data/BLOSUM45' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM50' -> 'Bio/Align/substitution_matrices/data/BLOSUM50' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM62' -> 'Bio/Align/substitution_matrices/data/BLOSUM62' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM80' -> 'Bio/Align/substitution_matrices/data/BLOSUM80' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM90' -> 'Bio/Align/substitution_matrices/data/BLOSUM90' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/DAYHOFF' -> 'Bio/Align/substitution_matrices/data/DAYHOFF' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/FENG' -> 'Bio/Align/substitution_matrices/data/FENG' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/GENETIC' -> 'Bio/Align/substitution_matrices/data/GENETIC' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/GONNET1992' -> 'Bio/Align/substitution_matrices/data/GONNET1992' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/HOXD70' -> 'Bio/Align/substitution_matrices/data/HOXD70' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/JOHNSON' -> 'Bio/Align/substitution_matrices/data/JOHNSON' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/JONES' -> 'Bio/Align/substitution_matrices/data/JONES' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/LEVIN' -> 'Bio/Align/substitution_matrices/data/LEVIN' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MCLACHLAN' -> 'Bio/Align/substitution_matrices/data/MCLACHLAN' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MDM78' -> 'Bio/Align/substitution_matrices/data/MDM78' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MEGABLAST' -> 'Bio/Align/substitution_matrices/data/MEGABLAST' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/NUC.4.4' -> 'Bio/Align/substitution_matrices/data/NUC.4.4' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM250' -> 'Bio/Align/substitution_matrices/data/PAM250' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM30' -> 'Bio/Align/substitution_matrices/data/PAM30' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM70' -> 'Bio/Align/substitution_matrices/data/PAM70' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/RAO' -> 'Bio/Align/substitution_matrices/data/RAO' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/RISLER' -> 'Bio/Align/substitution_matrices/data/RISLER' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/SCHNEIDER' -> 'Bio/Align/substitution_matrices/data/SCHNEIDER' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/STR' -> 'Bio/Align/substitution_matrices/data/STR' 563s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/TRANS' -> 'Bio/Align/substitution_matrices/data/TRANS' 563s Remove test test_Tutorial.py which is bound to fail 563s test_Ace ... ok 563s test_Affy ... ok 565s test_AlignIO ... ok 565s test_AlignIO_ClustalIO ... ok 565s test_AlignIO_EmbossIO ... ok 565s test_AlignIO_FastaIO ... ok 565s test_AlignIO_MauveIO ... ok 565s test_AlignIO_PhylipIO ... ok 565s test_AlignIO_convert ... ok 565s test_AlignInfo ... ok 566s test_Align_Alignment ... ok 566s test_Align_a2m ... ok 566s test_Align_bed ... ok 566s test_Align_bigbed ... ok 566s test_Align_bigmaf ... ok 567s test_Align_bigpsl ... ok 567s test_Align_chain ... ok 567s test_Align_clustal ... ok 572s test_Align_codonalign ... ok 572s test_Align_emboss ... ok 572s test_Align_exonerate ... ok 572s test_Align_fasta ... ok 572s test_Align_hhr ... ok 573s test_Align_maf ... ok 573s test_Align_mauve ... ok 573s test_Align_msf ... ok 573s test_Align_nexus ... ok 573s test_Align_phylip ... ok 573s test_Align_psl ... ok 574s test_Align_sam ... ok 575s test_Align_stockholm ... ok 575s test_Align_tabular ... ok 575s test_Application ... ok 575s test_BioSQL_MySQLdb_online ... skipping. internet not available 575s test_BioSQL_mysql_connector ... skipping. BioSQL test configuration file biosql.ini missing (see biosql.ini.sample) 575s test_BioSQL_mysql_connector_online ... skipping. internet not available 575s test_BioSQL_psycopg2_online ... skipping. internet not available 578s test_BioSQL_sqlite3 ... ok 578s test_BioSQL_sqlite3_online ... skipping. internet not available 578s test_Blast_Record ... ok 579s test_Blast_parser ... ok 579s test_CAPS ... ok 579s test_Chi2 ... ok 581s test_ClustalOmega_tool ... ok 581s test_Clustalw_tool ... skipping. Install clustalw or clustalw2 if you want to use it from Biopython. 581s test_Cluster ... ok 581s test_CodonTable ... ok 581s test_ColorSpiral ... ok 581s test_Compass ... ok 582s test_Consensus ... ok 583s test_Dialign_tool ... ok 583s test_EMBL_unittest ... ok 583s test_Emboss ... skipping. $EMBOSS_ROOT='/usr/lib/emboss' which does not exist! 583s test_EmbossPrimer ... ok 587s test_Entrez ... ok 587s test_Entrez_online ... skipping. internet not available 588s test_Entrez_parser ... ok 588s test_Enzyme ... ok 588s test_ExPASy ... skipping. internet not available 588s test_Fasttree_tool ... ok 588s test_File ... ok 588s test_GenBank ... ok 590s test_GenomeDiagram ... Warn: Can't find .pfb for face 'Helvetica' 591s ok 592s test_GraphicsChromosome ... ok 592s test_GraphicsDistribution ... ok 593s test_GraphicsGeneral ... ok 593s test_HMMCasino ... ok 593s test_HMMGeneral ... ok 593s test_KEGG ... ok 593s test_KEGG_online ... skipping. internet not available 598s test_KGML_graphics ... ok 598s test_KGML_graphics_online ... skipping. internet not available 598s test_KGML_nographics ... ok 598s test_KeyWList ... ok 598s test_LogisticRegression ... ok 599s test_MafIO_index ... ok 600s test_Mafft_tool ... ok 600s test_MarkovModel ... ok 600s test_Medline ... ok 600s test_Muscle_tool ... skipping. Install MUSCLE if you want to use the Bio.Align.Applications wrapper. 601s test_NCBIXML ... ok 602s test_NCBI_BLAST_tools ... ok 602s test_NCBI_qblast ... ok 602s test_NMR ... ok 602s test_NaiveBayes ... ok 602s test_Nexus ... ok 602s test_PAML_baseml ... ok 603s test_PAML_codeml ... ok 603s test_PAML_yn00 ... ok 606s test_PDB_CEAligner ... ok 607s test_PDB_DSSP ... /usr/lib/python3/dist-packages/Bio/PDB/DSSP.py:199: UserWarning: 607s Configuration error: 607s 607s The attempt to retrieve compound information for "SO4" failed. 607s 607s This information is searched for in a CCD file called components.cif or 607s components.cif.gz which should be located in one of the following directories: 607s 607s "/usr/share/libcifpp" 607s "/var/cache/libcifpp" 607s "/tmp/autopkgtest.r2ndTA/autopkgtest_tmp/libcifpp-data" 607s "/usr/share/libcifpp" 607s "/usr/share/libcifpp" 607s 607s (Note that you can add a directory to the search paths by setting the 607s LIBCIFPP_DATA_DIR environmental variable) 607s 607s On Linux an optional cron script might have been installed that automatically updates 607s components.cif and mmCIF dictionary files. This script only works when the file 607s libcifpp.conf contains an uncommented line with the text: 607s 607s update=true 607s 607s If you do not have a working cron script, you can manually update the files 607s in /var/cache/libcifpp using the following commands: 607s 607s curl -o /var/cache/libcifpp/components.cif https://files.wwpdb.org/pub/pdb/data/monomers/components.cif 607s curl -o /var/cache/libcifpp/mmcif_pdbx.dic https://mmcif.wwpdb.org/dictionaries/ascii/mmcif_pdbx_v50.dic 607s curl -o /var/cache/libcifpp/mmcif_ma.dic https://github.com/ihmwg/ModelCIF/raw/master/dist/mmcif_ma.dic 607s 607s The current order of compound factory objects is: 607s 607s CCD components.cif resource 607s CCD components.cif resource 607s Unknown compound: SO4 607s Missing compound information for SO4 607s 607s warnings.warn(err) 608s ok 608s test_PDB_Dice ... ok 608s test_PDB_Disordered ... ok 608s test_PDB_Exposure ... ok 608s test_PDB_FragmentMapper ... ok 609s test_PDB_KDTree ... ok 609s test_PDB_MMCIF2Dict ... ok 609s test_PDB_MMCIFIO ... ok 610s test_PDB_MMCIFParser ... ok 610s test_PDB_NACCESS ... ok 611s test_PDB_PDBIO ... ok 611s test_PDB_PDBList ... skipping. internet not available 619s test_PDB_PDBMLParser ... ok 619s test_PDB_PDBParser ... ok 619s test_PDB_PSEA ... skipping. Download and install psea from ftp://ftp.lmcp.jussieu.fr/pub/sincris/software/protein/p-sea/. Make sure that psea is on path 619s test_PDB_Polypeptide ... ok 619s test_PDB_QCPSuperimposer ... ok 623s test_PDB_SASA ... ok 623s test_PDB_SMCRA ... ok 623s test_PDB_Selection ... ok 623s test_PDB_StructureAlignment ... ok 623s test_PDB_Superimposer ... ok 623s test_PDB_alphafold_db ... skipping. internet not available 630s test_PDB_internal_coords ... ok 631s test_PDB_parse_pdb_header ... ok 631s test_PDB_vectors ... ok 631s test_PQR ... ok 631s test_Pathway ... ok 631s test_Phd ... ok 631s test_Phylo ... ok 632s test_PhyloXML ... ok 632s test_Phylo_CDAO ... ok 632s test_Phylo_NeXML ... ok 633s test_Phylo_igraph ... skipping. Install igraph if you wish to use it with Bio.Phylo 635s test_Phylo_matplotlib ... ok 636s test_Phylo_networkx ... ok 636s test_PopGen_GenePop_nodepend ... ok 637s test_Prank_tool ... ok 637s test_Probcons_tool ... ok 638s test_ProtParam ... ok 638s test_RCSBFormats ... ok 639s test_Restriction ... ok 639s test_SCOP_Astral ... ok 640s test_SCOP_Cla ... ok 640s test_SCOP_Des ... ok 640s test_SCOP_Dom ... ok 641s test_SCOP_Hie ... ok 641s test_SCOP_Raf ... ok 642s test_SCOP_Residues ... ok 642s test_SCOP_Scop ... ok 643s test_SVDSuperimposer ... ok 643s test_SearchIO_blast_tab ... ok 644s test_SearchIO_blast_tab_index ... ok 644s test_SearchIO_blast_xml ... ok 646s test_SearchIO_blast_xml_index ... ok 647s test_SearchIO_blat_psl ... ok 647s test_SearchIO_blat_psl_index ... ok 648s test_SearchIO_exonerate ... ok 648s test_SearchIO_exonerate_text_index ... ok 649s test_SearchIO_exonerate_vulgar_index ... ok 649s test_SearchIO_fasta_m10 ... ok 650s test_SearchIO_fasta_m10_index ... ok 650s test_SearchIO_hhsuite2_text ... ok 650s test_SearchIO_hmmer2_text ... ok 651s test_SearchIO_hmmer2_text_index ... ok 651s test_SearchIO_hmmer3_domtab ... ok 652s test_SearchIO_hmmer3_domtab_index ... ok 652s test_SearchIO_hmmer3_tab ... ok 652s test_SearchIO_hmmer3_tab_index ... ok 653s test_SearchIO_hmmer3_text ... ok 653s test_SearchIO_hmmer3_text_index ... ok 653s test_SearchIO_interproscan_xml ... ok 654s test_SearchIO_model ... ok 654s test_SearchIO_write ... ok 655s test_SeqFeature ... ok 668s test_SeqIO ... ok 669s test_SeqIO_AbiIO ... ok 669s test_SeqIO_FastaIO ... ok 670s test_SeqIO_Gck ... ok 670s test_SeqIO_Gfa ... ok 670s test_SeqIO_Insdc ... ok 671s test_SeqIO_NibIO ... ok 672s test_SeqIO_PdbIO ... ok 673s test_SeqIO_QualityIO ... ok 674s test_SeqIO_SeqXML ... ok 674s test_SeqIO_SnapGene ... ok 675s test_SeqIO_TwoBitIO ... ok 676s test_SeqIO_Xdna ... ok 677s test_SeqIO_features ... ok 688s test_SeqIO_index ... ok 689s test_SeqIO_online ... skipping. internet not available 689s test_SeqIO_write ... ok 689s test_SeqRecord ... ok 690s test_SeqUtils ... ok 693s test_Seq_objs ... ok 693s test_SffIO ... ok 693s test_SwissProt ... ok 694s test_TCoffee_tool ... ok 694s test_TogoWS ... skipping. internet not available 695s test_TreeConstruction ... ok 695s test_UniGene ... ok 696s test_UniProt ... skipping. internet not available 696s test_UniProt_GOA ... ok 697s test_UniProt_Parser ... ok 697s test_align ... ok 698s test_align_substitution_matrices ... ok 700s test_bgzf ... ok 701s test_cellosaurus ... ok 706s test_codonalign ... ok 706s test_geo ... ok 707s test_kNN ... ok 708s test_motifs ... ok 708s test_motifs_online ... skipping. internet not available 708s test_pairwise2 ... /usr/lib/python3/dist-packages/Bio/pairwise2.py:278: BiopythonDeprecationWarning: Bio.pairwise2 has been deprecated, and we intend to remove it in a future release of Biopython. As an alternative, please consider using Bio.Align.PairwiseAligner as a replacement, and contact the Biopython developers if you still need the Bio.pairwise2 module. 708s warnings.warn( 708s ok 709s test_pairwise2_no_C ... ok 710s test_pairwise_aligner ... ok 710s test_pairwise_alignment_map ... ok 716s test_phenotype ... ok 717s test_phenotype_fit ... ok 717s test_phyml_tool ... skipping. Couldn't find the PhyML software. Install PhyML 3.0 or later if you want to use the Bio.Phylo.Applications wrapper. 718s test_prodoc ... ok 718s test_prosite ... ok 718s test_raxml_tool ... skipping. Install RAxML (binary raxmlHPC) if you want to test the Bio.Phylo.Applications wrapper. 719s test_samtools_tool ... skipping. Install samtools and correctly set the file path to the program if you want to use it from Biopython 719s test_seq ... ok 720s test_translate ... ok 720s ---------------------------------------------------------------------- 720s Ran 216 tests in 156.953 seconds 720s 720s Skipping any tests requiring internet access 720s Python version: 3.12.7 (main, Nov 8 2024, 17:55:36) [GCC 14.2.0] 720s Operating system: posix linux 721s autopkgtest [21:40:37]: test full_suite: -----------------------] 722s full_suite PASS 722s autopkgtest [21:40:38]: test full_suite: - - - - - - - - - - results - - - - - - - - - - 722s autopkgtest [21:40:38]: @@@@@@@@@@@@@@@@@@@@ summary 722s dependencies PASS 722s full_suite PASS 734s nova [W] Using flock in prodstack6-s390x 734s Creating nova instance adt-plucky-s390x-python-biopython-20241114-212836-juju-7f2275-prod-proposed-migration-environment-20-d42c1d7d-38b6-4c1d-8151-7d6a4ad1d9b6 from image adt/ubuntu-plucky-s390x-server-20241114.img (UUID 41a907ef-1f3c-4685-a0eb-228b0d61c6b5)... 734s nova [W] Using flock in prodstack6-s390x 734s flock: timeout while waiting to get lock 734s Creating nova instance adt-plucky-s390x-python-biopython-20241114-212836-juju-7f2275-prod-proposed-migration-environment-20-d42c1d7d-38b6-4c1d-8151-7d6a4ad1d9b6 from image adt/ubuntu-plucky-s390x-server-20241114.img (UUID 41a907ef-1f3c-4685-a0eb-228b0d61c6b5)...