1s autopkgtest [09:50:09]: starting date and time: 2024-10-30 09:50:09+0000 1s autopkgtest [09:50:09]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 1s autopkgtest [09:50:09]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.7qugmv2p/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:setuptools --apt-upgrade python-biopython --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=setuptools/75.2.0-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-s390x --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-s390x-15.secgroup --name adt-plucky-s390x-python-biopython-20241030-095008-juju-7f2275-prod-proposed-migration-environment-2-8d69dad0-8007-46b2-9512-23252f9ea7ee --image adt/ubuntu-plucky-s390x-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --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/ 102s autopkgtest [09:51:50]: testbed dpkg architecture: s390x 102s autopkgtest [09:51:50]: testbed apt version: 2.9.8 102s autopkgtest [09:51:50]: @@@@@@@@@@@@@@@@@@@@ test bed setup 103s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 103s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [212 kB] 103s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [2840 B] 103s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [28.1 kB] 103s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 103s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x Packages [42.1 kB] 103s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x Packages [234 kB] 103s Fetched 600 kB in 1s (994 kB/s) 103s Reading package lists... 106s Reading package lists... 106s Building dependency tree... 106s Reading state information... 106s Calculating upgrade... 106s The following packages were automatically installed and are no longer required: 106s libperl5.38t64 perl-modules-5.38 106s Use 'sudo apt autoremove' to remove them. 106s The following NEW packages will be installed: 106s libperl5.40 perl-modules-5.40 python3-jaraco.text 106s The following packages will be upgraded: 106s info install-info libkeyutils1 liblocale-gettext-perl libtext-charwidth-perl 106s libtext-iconv-perl perl perl-base python3-pkg-resources python3-setuptools 106s vim-common vim-tiny xxd 106s 13 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. 106s Need to get 12.6 MB of archives. 106s After this operation, 50.3 MB of additional disk space will be used. 106s Get:1 http://ftpmaster.internal/ubuntu plucky/main s390x perl-modules-5.40 all 5.40.0-6 [3214 kB] 107s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x libperl5.40 s390x 5.40.0-6 [4984 kB] 107s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x perl s390x 5.40.0-6 [262 kB] 107s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x perl-base s390x 5.40.0-6 [1971 kB] 107s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x liblocale-gettext-perl s390x 1.07-7build1 [15.9 kB] 107s Get:6 http://ftpmaster.internal/ubuntu plucky/main s390x libtext-iconv-perl s390x 1.7-8build4 [13.8 kB] 107s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x libtext-charwidth-perl s390x 0.04-11build4 [9646 B] 107s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x install-info s390x 7.1.1-1 [64.8 kB] 107s Get:9 http://ftpmaster.internal/ubuntu plucky/main s390x libkeyutils1 s390x 1.6.3-4ubuntu2 [9960 B] 107s Get:10 http://ftpmaster.internal/ubuntu plucky/main s390x vim-tiny s390x 2:9.1.0777-1ubuntu1 [664 kB] 107s Get:11 http://ftpmaster.internal/ubuntu plucky/main s390x vim-common all 2:9.1.0777-1ubuntu1 [394 kB] 107s Get:12 http://ftpmaster.internal/ubuntu plucky/main s390x xxd s390x 2:9.1.0777-1ubuntu1 [66.5 kB] 107s Get:13 http://ftpmaster.internal/ubuntu plucky/main s390x info s390x 7.1.1-1 [149 kB] 107s Get:14 http://ftpmaster.internal/ubuntu plucky/main s390x python3-jaraco.text all 4.0.0-1 [11.5 kB] 107s Get:15 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-pkg-resources all 75.2.0-1 [134 kB] 107s Get:16 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-setuptools all 75.2.0-1 [657 kB] 107s Fetched 12.6 MB in 1s (10.8 MB/s) 107s (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 ... 55329 files and directories currently installed.) 107s Preparing to unpack .../perl_5.40.0-6_s390x.deb ... 107s Unpacking perl (5.40.0-6) over (5.38.2-5) ... 108s Selecting previously unselected package perl-modules-5.40. 108s Preparing to unpack .../perl-modules-5.40_5.40.0-6_all.deb ... 108s Unpacking perl-modules-5.40 (5.40.0-6) ... 108s Selecting previously unselected package libperl5.40:s390x. 108s Preparing to unpack .../libperl5.40_5.40.0-6_s390x.deb ... 108s Unpacking libperl5.40:s390x (5.40.0-6) ... 108s Preparing to unpack .../perl-base_5.40.0-6_s390x.deb ... 108s Unpacking perl-base (5.40.0-6) over (5.38.2-5) ... 108s Setting up perl-base (5.40.0-6) ... 108s (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 ... 57408 files and directories currently installed.) 108s Preparing to unpack .../liblocale-gettext-perl_1.07-7build1_s390x.deb ... 108s Unpacking liblocale-gettext-perl (1.07-7build1) over (1.07-7) ... 108s Preparing to unpack .../libtext-iconv-perl_1.7-8build4_s390x.deb ... 108s Unpacking libtext-iconv-perl:s390x (1.7-8build4) over (1.7-8build3) ... 108s Preparing to unpack .../libtext-charwidth-perl_0.04-11build4_s390x.deb ... 108s Unpacking libtext-charwidth-perl:s390x (0.04-11build4) over (0.04-11build3) ... 108s Preparing to unpack .../install-info_7.1.1-1_s390x.deb ... 108s Unpacking install-info (7.1.1-1) over (7.1-3build2) ... 108s Setting up install-info (7.1.1-1) ... 108s (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 ... 57408 files and directories currently installed.) 108s Preparing to unpack .../0-libkeyutils1_1.6.3-4ubuntu2_s390x.deb ... 108s Unpacking libkeyutils1:s390x (1.6.3-4ubuntu2) over (1.6.3-3build1) ... 108s Preparing to unpack .../1-vim-tiny_2%3a9.1.0777-1ubuntu1_s390x.deb ... 108s Unpacking vim-tiny (2:9.1.0777-1ubuntu1) over (2:9.1.0496-1ubuntu6) ... 108s Preparing to unpack .../2-vim-common_2%3a9.1.0777-1ubuntu1_all.deb ... 108s Unpacking vim-common (2:9.1.0777-1ubuntu1) over (2:9.1.0496-1ubuntu6) ... 108s Preparing to unpack .../3-xxd_2%3a9.1.0777-1ubuntu1_s390x.deb ... 108s Unpacking xxd (2:9.1.0777-1ubuntu1) over (2:9.1.0496-1ubuntu6) ... 108s Preparing to unpack .../4-info_7.1.1-1_s390x.deb ... 108s Unpacking info (7.1.1-1) over (7.1-3build2) ... 108s Selecting previously unselected package python3-jaraco.text. 108s Preparing to unpack .../5-python3-jaraco.text_4.0.0-1_all.deb ... 108s Unpacking python3-jaraco.text (4.0.0-1) ... 108s Preparing to unpack .../6-python3-pkg-resources_75.2.0-1_all.deb ... 108s Unpacking python3-pkg-resources (75.2.0-1) over (74.1.2-1) ... 108s Preparing to unpack .../7-python3-setuptools_75.2.0-1_all.deb ... 108s Unpacking python3-setuptools (75.2.0-1) over (74.1.2-1) ... 108s Setting up python3-pkg-resources (75.2.0-1) ... 108s Setting up libtext-iconv-perl:s390x (1.7-8build4) ... 108s Setting up libtext-charwidth-perl:s390x (0.04-11build4) ... 108s Setting up libkeyutils1:s390x (1.6.3-4ubuntu2) ... 108s Setting up xxd (2:9.1.0777-1ubuntu1) ... 108s Setting up vim-common (2:9.1.0777-1ubuntu1) ... 108s Installing new version of config file /etc/vim/vimrc ... 108s Setting up python3-jaraco.text (4.0.0-1) ... 109s Setting up perl-modules-5.40 (5.40.0-6) ... 109s Setting up info (7.1.1-1) ... 109s Setting up liblocale-gettext-perl (1.07-7build1) ... 109s Setting up python3-setuptools (75.2.0-1) ... 109s Setting up vim-tiny (2:9.1.0777-1ubuntu1) ... 109s Setting up libperl5.40:s390x (5.40.0-6) ... 109s Setting up perl (5.40.0-6) ... 109s Processing triggers for libc-bin (2.40-1ubuntu3) ... 109s Processing triggers for man-db (2.12.1-3) ... 110s Processing triggers for install-info (7.1.1-1) ... 110s Reading package lists... 110s Building dependency tree... 110s Reading state information... 111s The following packages will be REMOVED: 111s libperl5.38t64* perl-modules-5.38* 111s 0 upgraded, 0 newly installed, 2 to remove and 0 not upgraded. 111s After this operation, 49.5 MB disk space will be freed. 111s (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 ... 57417 files and directories currently installed.) 111s Removing libperl5.38t64:s390x (5.38.2-5) ... 111s Removing perl-modules-5.38 (5.38.2-5) ... 111s Processing triggers for man-db (2.12.1-3) ... 111s Processing triggers for libc-bin (2.40-1ubuntu3) ... 112s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 112s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 112s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 112s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 112s Reading package lists... 113s Reading package lists... 113s Building dependency tree... 113s Reading state information... 113s Calculating upgrade... 113s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 113s Reading package lists... 113s Building dependency tree... 113s Reading state information... 113s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 116s autopkgtest [09:52:04]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP Mon Sep 16 12:49:35 UTC 2024 116s autopkgtest [09:52:04]: @@@@@@@@@@@@@@@@@@@@ apt-source python-biopython 119s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-biopython 1.83+dfsg1-3 (dsc) [3437 B] 119s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-biopython 1.83+dfsg1-3 (tar) [11.5 MB] 119s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-biopython 1.83+dfsg1-3 (diff) [21.7 kB] 119s gpgv: Signature made Wed May 22 13:59:24 2024 UTC 119s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 119s gpgv: issuer "emollier@debian.org" 119s gpgv: Can't check signature: No public key 119s dpkg-source: warning: cannot verify inline signature for ./python-biopython_1.83+dfsg1-3.dsc: no acceptable signature found 120s autopkgtest [09:52:08]: testing package python-biopython version 1.83+dfsg1-3 120s autopkgtest [09:52:08]: build not needed 123s autopkgtest [09:52:11]: test dependencies: preparing testbed 125s Reading package lists... 125s Building dependency tree... 125s Reading state information... 126s Starting pkgProblemResolver with broken count: 0 126s Starting 2 pkgProblemResolver with broken count: 0 126s Done 126s The following additional packages will be installed: 126s fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 126s libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 libfreetype6 126s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libimagequant0 libjbig0 126s libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 libopenjp2-7 libpixman-1-0 126s libraqm0 libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 libwebpmux3 126s libxcb-render0 libxcb-shm0 libxrender1 python-biopython-doc python3-all 126s python3-biopython python3-biopython-sql python3-cairo python3-freetype 126s python3-numpy python3-pil python3-reportlab python3-rlpycairo sgml-base 126s w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 126s Suggested packages: 126s fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre liblcms2-utils 126s python3-tk bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle3 126s phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf 126s python3-rdflib python3-psycopg2 python3-scipy raxml samtools t-coffee wise 126s gcc gfortran python-numpy-doc python3-dev python3-pytest python-pil-doc 126s pdf-viewer python3-egenix-mxtexttools python-reportlab-doc rl-accel 126s rl-renderpm sgml-base-doc debhelper 126s Recommended packages: 126s ncbi-blast+ python3-olefile fonts-dejavu-extra 126s The following NEW packages will be installed: 126s autopkgtest-satdep fontconfig-config fonts-dejavu-core fonts-dejavu-mono 126s fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 126s libfreetype6 libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b 126s libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 126s libopenjp2-7 libpixman-1-0 libraqm0 libsharpyuv0 libtiff6 libwebp7 126s libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1 126s python-biopython-doc python3-all python3-biopython python3-biopython-sql 126s python3-cairo python3-freetype python3-numpy python3-pil python3-reportlab 126s python3-rlpycairo sgml-base w3c-sgml-lib x11-common xfonts-encodings 126s xfonts-utils xml-core 126s 0 upgraded, 48 newly installed, 0 to remove and 0 not upgraded. 126s Need to get 45.5 MB/45.5 MB of archives. 126s After this operation, 106 MB of additional disk space will be used. 126s Get:1 /tmp/autopkgtest.U86Tbq/1-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [740 B] 126s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x sgml-base all 1.31 [11.4 kB] 126s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-mono all 2.37-8 [502 kB] 126s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-core all 2.37-8 [835 kB] 126s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x libfontenc1 s390x 1:1.1.8-1build1 [14.8 kB] 126s Get:6 http://ftpmaster.internal/ubuntu plucky/main s390x libfreetype6 s390x 2.13.3+dfsg-1 [431 kB] 126s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x x11-common all 1:7.7+23ubuntu3 [21.7 kB] 126s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 126s Get:9 http://ftpmaster.internal/ubuntu plucky/main s390x xfonts-utils s390x 1:7.7+7 [101 kB] 126s Get:10 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-urw-base35 all 20200910-8 [11.0 MB] 127s Get:11 http://ftpmaster.internal/ubuntu plucky/main s390x fontconfig-config s390x 2.15.0-1.1ubuntu2 [37.4 kB] 127s Get:12 http://ftpmaster.internal/ubuntu plucky/main s390x libblas3 s390x 3.12.0-3build2 [238 kB] 127s Get:13 http://ftpmaster.internal/ubuntu plucky/main s390x libfontconfig1 s390x 2.15.0-1.1ubuntu2 [150 kB] 127s Get:14 http://ftpmaster.internal/ubuntu plucky/main s390x libpixman-1-0 s390x 0.42.2-1build1 [206 kB] 127s Get:15 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-render0 s390x 1.17.0-2 [17.0 kB] 127s Get:16 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-shm0 s390x 1.17.0-2 [5862 B] 127s Get:17 http://ftpmaster.internal/ubuntu plucky/main s390x libxrender1 s390x 1:0.9.10-1.1build1 [20.4 kB] 127s Get:18 http://ftpmaster.internal/ubuntu plucky/main s390x libcairo2 s390x 1.18.2-2 [580 kB] 127s Get:19 http://ftpmaster.internal/ubuntu plucky/main s390x libdeflate0 s390x 1.21-1 [46.1 kB] 127s Get:20 http://ftpmaster.internal/ubuntu plucky/main s390x libgfortran5 s390x 14.2.0-7ubuntu1 [587 kB] 127s Get:21 http://ftpmaster.internal/ubuntu plucky/main s390x libgomp1 s390x 14.2.0-7ubuntu1 [151 kB] 127s Get:22 http://ftpmaster.internal/ubuntu plucky/main s390x libgraphite2-3 s390x 1.3.14-2ubuntu1 [79.8 kB] 127s Get:23 http://ftpmaster.internal/ubuntu plucky/main s390x libharfbuzz0b s390x 9.0.0-1 [533 kB] 127s Get:24 http://ftpmaster.internal/ubuntu plucky/main s390x libimagequant0 s390x 2.18.0-1build1 [43.3 kB] 127s Get:25 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu2 [150 kB] 127s Get:26 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B] 127s Get:27 http://ftpmaster.internal/ubuntu plucky/main s390x liblapack3 s390x 3.12.0-3build2 [2953 kB] 127s Get:28 http://ftpmaster.internal/ubuntu plucky/main s390x liblcms2-2 s390x 2.14-2build1 [172 kB] 127s Get:29 http://ftpmaster.internal/ubuntu plucky/main s390x libraqm0 s390x 0.10.1-1build1 [16.2 kB] 127s Get:30 http://ftpmaster.internal/ubuntu plucky/main s390x libsharpyuv0 s390x 1.4.0-0.1 [16.2 kB] 127s Get:31 http://ftpmaster.internal/ubuntu plucky/main s390x libjbig0 s390x 2.1-6.1ubuntu2 [33.1 kB] 127s Get:32 http://ftpmaster.internal/ubuntu plucky/main s390x libwebp7 s390x 1.4.0-0.1 [204 kB] 127s Get:33 http://ftpmaster.internal/ubuntu plucky/main s390x libtiff6 s390x 4.5.1+git230720-4ubuntu4 [217 kB] 127s Get:34 http://ftpmaster.internal/ubuntu plucky/main s390x libwebpdemux2 s390x 1.4.0-0.1 [12.2 kB] 127s Get:35 http://ftpmaster.internal/ubuntu plucky/main s390x libwebpmux3 s390x 1.4.0-0.1 [25.3 kB] 127s Get:36 http://ftpmaster.internal/ubuntu plucky/universe s390x python-biopython-doc all 1.83+dfsg1-3 [17.4 MB] 128s Get:37 http://ftpmaster.internal/ubuntu plucky/main s390x python3-all s390x 3.12.6-0ubuntu1 [890 B] 128s Get:38 http://ftpmaster.internal/ubuntu plucky/main s390x python3-numpy s390x 1:1.26.4+ds-11build1 [4113 kB] 128s Get:39 http://ftpmaster.internal/ubuntu plucky/main s390x libopenjp2-7 s390x 2.5.0-2ubuntu1 [208 kB] 128s Get:40 http://ftpmaster.internal/ubuntu plucky/main s390x python3-pil s390x 10.4.0-1ubuntu1 [492 kB] 128s Get:41 http://ftpmaster.internal/ubuntu plucky/main s390x python3-cairo s390x 1.26.1-2 [119 kB] 128s Get:42 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-freetype all 2.4.0-2 [81.3 kB] 128s Get:43 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-rlpycairo all 0.3.0-3 [9130 B] 128s Get:44 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-reportlab all 4.2.2-1 [1130 kB] 128s Get:45 http://ftpmaster.internal/ubuntu plucky/main s390x xml-core all 0.19 [20.3 kB] 128s Get:46 http://ftpmaster.internal/ubuntu plucky/universe s390x w3c-sgml-lib all 1.3-3 [280 kB] 128s Get:47 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-biopython s390x 1.83+dfsg1-3 [1680 kB] 128s Get:48 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-biopython-sql all 1.83+dfsg1-3 [25.7 kB] 128s Fetched 45.5 MB in 2s (19.2 MB/s) 128s Selecting previously unselected package sgml-base. 128s (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 ... 55484 files and directories currently installed.) 128s Preparing to unpack .../00-sgml-base_1.31_all.deb ... 128s Unpacking sgml-base (1.31) ... 128s Selecting previously unselected package fonts-dejavu-mono. 128s Preparing to unpack .../01-fonts-dejavu-mono_2.37-8_all.deb ... 128s Unpacking fonts-dejavu-mono (2.37-8) ... 128s Selecting previously unselected package fonts-dejavu-core. 128s Preparing to unpack .../02-fonts-dejavu-core_2.37-8_all.deb ... 128s Unpacking fonts-dejavu-core (2.37-8) ... 128s Selecting previously unselected package libfontenc1:s390x. 128s Preparing to unpack .../03-libfontenc1_1%3a1.1.8-1build1_s390x.deb ... 128s Unpacking libfontenc1:s390x (1:1.1.8-1build1) ... 128s Selecting previously unselected package libfreetype6:s390x. 128s Preparing to unpack .../04-libfreetype6_2.13.3+dfsg-1_s390x.deb ... 128s Unpacking libfreetype6:s390x (2.13.3+dfsg-1) ... 128s Selecting previously unselected package x11-common. 128s Preparing to unpack .../05-x11-common_1%3a7.7+23ubuntu3_all.deb ... 128s Unpacking x11-common (1:7.7+23ubuntu3) ... 128s Selecting previously unselected package xfonts-encodings. 128s Preparing to unpack .../06-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 128s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 128s Selecting previously unselected package xfonts-utils. 128s Preparing to unpack .../07-xfonts-utils_1%3a7.7+7_s390x.deb ... 128s Unpacking xfonts-utils (1:7.7+7) ... 129s Selecting previously unselected package fonts-urw-base35. 129s Preparing to unpack .../08-fonts-urw-base35_20200910-8_all.deb ... 129s Unpacking fonts-urw-base35 (20200910-8) ... 129s Selecting previously unselected package fontconfig-config. 129s Preparing to unpack .../09-fontconfig-config_2.15.0-1.1ubuntu2_s390x.deb ... 129s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 129s Selecting previously unselected package libblas3:s390x. 129s Preparing to unpack .../10-libblas3_3.12.0-3build2_s390x.deb ... 129s Unpacking libblas3:s390x (3.12.0-3build2) ... 129s Selecting previously unselected package libfontconfig1:s390x. 129s Preparing to unpack .../11-libfontconfig1_2.15.0-1.1ubuntu2_s390x.deb ... 129s Unpacking libfontconfig1:s390x (2.15.0-1.1ubuntu2) ... 129s Selecting previously unselected package libpixman-1-0:s390x. 129s Preparing to unpack .../12-libpixman-1-0_0.42.2-1build1_s390x.deb ... 129s Unpacking libpixman-1-0:s390x (0.42.2-1build1) ... 129s Selecting previously unselected package libxcb-render0:s390x. 129s Preparing to unpack .../13-libxcb-render0_1.17.0-2_s390x.deb ... 129s Unpacking libxcb-render0:s390x (1.17.0-2) ... 129s Selecting previously unselected package libxcb-shm0:s390x. 129s Preparing to unpack .../14-libxcb-shm0_1.17.0-2_s390x.deb ... 129s Unpacking libxcb-shm0:s390x (1.17.0-2) ... 129s Selecting previously unselected package libxrender1:s390x. 129s Preparing to unpack .../15-libxrender1_1%3a0.9.10-1.1build1_s390x.deb ... 129s Unpacking libxrender1:s390x (1:0.9.10-1.1build1) ... 129s Selecting previously unselected package libcairo2:s390x. 129s Preparing to unpack .../16-libcairo2_1.18.2-2_s390x.deb ... 129s Unpacking libcairo2:s390x (1.18.2-2) ... 129s Selecting previously unselected package libdeflate0:s390x. 129s Preparing to unpack .../17-libdeflate0_1.21-1_s390x.deb ... 129s Unpacking libdeflate0:s390x (1.21-1) ... 129s Selecting previously unselected package libgfortran5:s390x. 129s Preparing to unpack .../18-libgfortran5_14.2.0-7ubuntu1_s390x.deb ... 129s Unpacking libgfortran5:s390x (14.2.0-7ubuntu1) ... 129s Selecting previously unselected package libgomp1:s390x. 129s Preparing to unpack .../19-libgomp1_14.2.0-7ubuntu1_s390x.deb ... 129s Unpacking libgomp1:s390x (14.2.0-7ubuntu1) ... 129s Selecting previously unselected package libgraphite2-3:s390x. 129s Preparing to unpack .../20-libgraphite2-3_1.3.14-2ubuntu1_s390x.deb ... 129s Unpacking libgraphite2-3:s390x (1.3.14-2ubuntu1) ... 129s Selecting previously unselected package libharfbuzz0b:s390x. 129s Preparing to unpack .../21-libharfbuzz0b_9.0.0-1_s390x.deb ... 129s Unpacking libharfbuzz0b:s390x (9.0.0-1) ... 129s Selecting previously unselected package libimagequant0:s390x. 129s Preparing to unpack .../22-libimagequant0_2.18.0-1build1_s390x.deb ... 129s Unpacking libimagequant0:s390x (2.18.0-1build1) ... 129s Selecting previously unselected package libjpeg-turbo8:s390x. 129s Preparing to unpack .../23-libjpeg-turbo8_2.1.5-2ubuntu2_s390x.deb ... 129s Unpacking libjpeg-turbo8:s390x (2.1.5-2ubuntu2) ... 129s Selecting previously unselected package libjpeg8:s390x. 129s Preparing to unpack .../24-libjpeg8_8c-2ubuntu11_s390x.deb ... 129s Unpacking libjpeg8:s390x (8c-2ubuntu11) ... 129s Selecting previously unselected package liblapack3:s390x. 129s Preparing to unpack .../25-liblapack3_3.12.0-3build2_s390x.deb ... 129s Unpacking liblapack3:s390x (3.12.0-3build2) ... 129s Selecting previously unselected package liblcms2-2:s390x. 129s Preparing to unpack .../26-liblcms2-2_2.14-2build1_s390x.deb ... 129s Unpacking liblcms2-2:s390x (2.14-2build1) ... 129s Selecting previously unselected package libraqm0:s390x. 129s Preparing to unpack .../27-libraqm0_0.10.1-1build1_s390x.deb ... 129s Unpacking libraqm0:s390x (0.10.1-1build1) ... 129s Selecting previously unselected package libsharpyuv0:s390x. 129s Preparing to unpack .../28-libsharpyuv0_1.4.0-0.1_s390x.deb ... 129s Unpacking libsharpyuv0:s390x (1.4.0-0.1) ... 129s Selecting previously unselected package libjbig0:s390x. 129s Preparing to unpack .../29-libjbig0_2.1-6.1ubuntu2_s390x.deb ... 129s Unpacking libjbig0:s390x (2.1-6.1ubuntu2) ... 129s Selecting previously unselected package libwebp7:s390x. 129s Preparing to unpack .../30-libwebp7_1.4.0-0.1_s390x.deb ... 129s Unpacking libwebp7:s390x (1.4.0-0.1) ... 129s Selecting previously unselected package libtiff6:s390x. 129s Preparing to unpack .../31-libtiff6_4.5.1+git230720-4ubuntu4_s390x.deb ... 129s Unpacking libtiff6:s390x (4.5.1+git230720-4ubuntu4) ... 129s Selecting previously unselected package libwebpdemux2:s390x. 129s Preparing to unpack .../32-libwebpdemux2_1.4.0-0.1_s390x.deb ... 129s Unpacking libwebpdemux2:s390x (1.4.0-0.1) ... 129s Selecting previously unselected package libwebpmux3:s390x. 129s Preparing to unpack .../33-libwebpmux3_1.4.0-0.1_s390x.deb ... 129s Unpacking libwebpmux3:s390x (1.4.0-0.1) ... 129s Selecting previously unselected package python-biopython-doc. 129s Preparing to unpack .../34-python-biopython-doc_1.83+dfsg1-3_all.deb ... 129s Unpacking python-biopython-doc (1.83+dfsg1-3) ... 129s Selecting previously unselected package python3-all. 129s Preparing to unpack .../35-python3-all_3.12.6-0ubuntu1_s390x.deb ... 129s Unpacking python3-all (3.12.6-0ubuntu1) ... 129s Selecting previously unselected package python3-numpy. 129s Preparing to unpack .../36-python3-numpy_1%3a1.26.4+ds-11build1_s390x.deb ... 129s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 129s Selecting previously unselected package libopenjp2-7:s390x. 129s Preparing to unpack .../37-libopenjp2-7_2.5.0-2ubuntu1_s390x.deb ... 129s Unpacking libopenjp2-7:s390x (2.5.0-2ubuntu1) ... 129s Selecting previously unselected package python3-pil:s390x. 129s Preparing to unpack .../38-python3-pil_10.4.0-1ubuntu1_s390x.deb ... 129s Unpacking python3-pil:s390x (10.4.0-1ubuntu1) ... 129s Selecting previously unselected package python3-cairo. 129s Preparing to unpack .../39-python3-cairo_1.26.1-2_s390x.deb ... 129s Unpacking python3-cairo (1.26.1-2) ... 129s Selecting previously unselected package python3-freetype. 129s Preparing to unpack .../40-python3-freetype_2.4.0-2_all.deb ... 129s Unpacking python3-freetype (2.4.0-2) ... 129s Selecting previously unselected package python3-rlpycairo. 129s Preparing to unpack .../41-python3-rlpycairo_0.3.0-3_all.deb ... 129s Unpacking python3-rlpycairo (0.3.0-3) ... 129s Selecting previously unselected package python3-reportlab. 129s Preparing to unpack .../42-python3-reportlab_4.2.2-1_all.deb ... 129s Unpacking python3-reportlab (4.2.2-1) ... 129s Selecting previously unselected package xml-core. 129s Preparing to unpack .../43-xml-core_0.19_all.deb ... 129s Unpacking xml-core (0.19) ... 129s Selecting previously unselected package w3c-sgml-lib. 129s Preparing to unpack .../44-w3c-sgml-lib_1.3-3_all.deb ... 129s Unpacking w3c-sgml-lib (1.3-3) ... 129s Selecting previously unselected package python3-biopython. 129s Preparing to unpack .../45-python3-biopython_1.83+dfsg1-3_s390x.deb ... 129s Unpacking python3-biopython (1.83+dfsg1-3) ... 130s Selecting previously unselected package python3-biopython-sql. 130s Preparing to unpack .../46-python3-biopython-sql_1.83+dfsg1-3_all.deb ... 130s Unpacking python3-biopython-sql (1.83+dfsg1-3) ... 130s Selecting previously unselected package autopkgtest-satdep. 130s Preparing to unpack .../47-1-autopkgtest-satdep.deb ... 130s Unpacking autopkgtest-satdep (0) ... 130s Setting up libgraphite2-3:s390x (1.3.14-2ubuntu1) ... 130s Setting up liblcms2-2:s390x (2.14-2build1) ... 130s Setting up libpixman-1-0:s390x (0.42.2-1build1) ... 130s Setting up libsharpyuv0:s390x (1.4.0-0.1) ... 130s Setting up libxrender1:s390x (1:0.9.10-1.1build1) ... 130s Setting up libxcb-render0:s390x (1.17.0-2) ... 130s Setting up x11-common (1:7.7+23ubuntu3) ... 130s Setting up libdeflate0:s390x (1.21-1) ... 130s Setting up python3-all (3.12.6-0ubuntu1) ... 130s Setting up libxcb-shm0:s390x (1.17.0-2) ... 130s Setting up libgomp1:s390x (14.2.0-7ubuntu1) ... 130s Setting up libjbig0:s390x (2.1-6.1ubuntu2) ... 130s Setting up libfontenc1:s390x (1:1.1.8-1build1) ... 130s Setting up libblas3:s390x (3.12.0-3build2) ... 130s 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 130s Setting up libfreetype6:s390x (2.13.3+dfsg-1) ... 130s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 130s Setting up libimagequant0:s390x (2.18.0-1build1) ... 130s Setting up fonts-dejavu-mono (2.37-8) ... 130s Setting up fonts-dejavu-core (2.37-8) ... 130s Setting up libjpeg-turbo8:s390x (2.1.5-2ubuntu2) ... 130s Setting up libgfortran5:s390x (14.2.0-7ubuntu1) ... 130s Setting up libwebp7:s390x (1.4.0-0.1) ... 130s Setting up python-biopython-doc (1.83+dfsg1-3) ... 130s Setting up libopenjp2-7:s390x (2.5.0-2ubuntu1) ... 130s Setting up libharfbuzz0b:s390x (9.0.0-1) ... 130s Setting up sgml-base (1.31) ... 130s Setting up libwebpmux3:s390x (1.4.0-0.1) ... 130s Setting up libjpeg8:s390x (8c-2ubuntu11) ... 130s Setting up liblapack3:s390x (3.12.0-3build2) ... 130s 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 130s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 130s Setting up libwebpdemux2:s390x (1.4.0-0.1) ... 130s Setting up python3-freetype (2.4.0-2) ... 130s Setting up xfonts-utils (1:7.7+7) ... 130s Setting up libraqm0:s390x (0.10.1-1build1) ... 130s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 132s Setting up libtiff6:s390x (4.5.1+git230720-4ubuntu4) ... 132s Setting up xml-core (0.19) ... 132s Setting up libfontconfig1:s390x (2.15.0-1.1ubuntu2) ... 132s Setting up fonts-urw-base35 (20200910-8) ... 132s Setting up libcairo2:s390x (1.18.2-2) ... 132s Setting up python3-pil:s390x (10.4.0-1ubuntu1) ... 132s Setting up python3-cairo (1.26.1-2) ... 133s Setting up python3-rlpycairo (0.3.0-3) ... 133s Setting up python3-reportlab (4.2.2-1) ... 133s Processing triggers for libc-bin (2.40-1ubuntu3) ... 133s Processing triggers for man-db (2.12.1-3) ... 133s Processing triggers for sgml-base (1.31) ... 133s Setting up w3c-sgml-lib (1.3-3) ... 153s Setting up python3-biopython (1.83+dfsg1-3) ... 154s Setting up python3-biopython-sql (1.83+dfsg1-3) ... 154s Setting up autopkgtest-satdep (0) ... 157s (Reading database ... 60500 files and directories currently installed.) 157s Removing autopkgtest-satdep (0) ... 158s autopkgtest [09:52:46]: test dependencies: sh debian/tests/run-unit-test 158s autopkgtest [09:52:46]: test dependencies: [----------------------- 158s mkdir: created directory 'Bio' 158s mkdir: created directory 'Bio/Align' 158s mkdir: created directory 'Bio/Align/substitution_matrices' 158s mkdir: created directory 'Bio/Align/substitution_matrices/data/' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER22' -> 'Bio/Align/substitution_matrices/data/BENNER22' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER6' -> 'Bio/Align/substitution_matrices/data/BENNER6' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER74' -> 'Bio/Align/substitution_matrices/data/BENNER74' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLASTN' -> 'Bio/Align/substitution_matrices/data/BLASTN' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLASTP' -> 'Bio/Align/substitution_matrices/data/BLASTP' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM45' -> 'Bio/Align/substitution_matrices/data/BLOSUM45' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM50' -> 'Bio/Align/substitution_matrices/data/BLOSUM50' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM62' -> 'Bio/Align/substitution_matrices/data/BLOSUM62' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM80' -> 'Bio/Align/substitution_matrices/data/BLOSUM80' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM90' -> 'Bio/Align/substitution_matrices/data/BLOSUM90' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/DAYHOFF' -> 'Bio/Align/substitution_matrices/data/DAYHOFF' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/FENG' -> 'Bio/Align/substitution_matrices/data/FENG' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/GENETIC' -> 'Bio/Align/substitution_matrices/data/GENETIC' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/GONNET1992' -> 'Bio/Align/substitution_matrices/data/GONNET1992' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/HOXD70' -> 'Bio/Align/substitution_matrices/data/HOXD70' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/JOHNSON' -> 'Bio/Align/substitution_matrices/data/JOHNSON' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/JONES' -> 'Bio/Align/substitution_matrices/data/JONES' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/LEVIN' -> 'Bio/Align/substitution_matrices/data/LEVIN' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MCLACHLAN' -> 'Bio/Align/substitution_matrices/data/MCLACHLAN' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MDM78' -> 'Bio/Align/substitution_matrices/data/MDM78' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MEGABLAST' -> 'Bio/Align/substitution_matrices/data/MEGABLAST' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/NUC.4.4' -> 'Bio/Align/substitution_matrices/data/NUC.4.4' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM250' -> 'Bio/Align/substitution_matrices/data/PAM250' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM30' -> 'Bio/Align/substitution_matrices/data/PAM30' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM70' -> 'Bio/Align/substitution_matrices/data/PAM70' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/RAO' -> 'Bio/Align/substitution_matrices/data/RAO' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/RISLER' -> 'Bio/Align/substitution_matrices/data/RISLER' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/SCHNEIDER' -> 'Bio/Align/substitution_matrices/data/SCHNEIDER' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/STR' -> 'Bio/Align/substitution_matrices/data/STR' 158s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/TRANS' -> 'Bio/Align/substitution_matrices/data/TRANS' 158s Remove test test_Tutorial.py which is bound to fail 159s test_Ace ... ok 159s test_Affy ... ok 161s test_AlignIO ... ok 161s test_AlignIO_ClustalIO ... ok 161s test_AlignIO_EmbossIO ... ok 161s test_AlignIO_FastaIO ... ok 161s test_AlignIO_MauveIO ... ok 161s test_AlignIO_PhylipIO ... ok 161s test_AlignIO_convert ... ok 161s test_AlignInfo ... ok 161s test_Align_Alignment ... ok 161s test_Align_a2m ... ok 161s test_Align_bed ... ok 161s test_Align_bigbed ... ok 162s test_Align_bigmaf ... ok 162s test_Align_bigpsl ... ok 162s test_Align_chain ... ok 162s test_Align_clustal ... ok 166s test_Align_codonalign ... ok 166s test_Align_emboss ... ok 166s test_Align_exonerate ... ok 166s test_Align_fasta ... ok 166s test_Align_hhr ... ok 166s test_Align_maf ... ok 166s test_Align_mauve ... ok 166s test_Align_msf ... ok 166s test_Align_nexus ... ok 166s test_Align_phylip ... ok 167s test_Align_psl ... ok 167s test_Align_sam ... ok 168s test_Align_stockholm ... ok 169s test_Align_tabular ... ok 169s test_Application ... ok 169s test_BioSQL_MySQLdb_online ... skipping. internet not available 169s test_BioSQL_mysql_connector ... skipping. BioSQL test configuration file biosql.ini missing (see biosql.ini.sample) 169s test_BioSQL_mysql_connector_online ... skipping. internet not available 169s test_BioSQL_psycopg2_online ... skipping. internet not available 171s test_BioSQL_sqlite3 ... ok 171s test_BioSQL_sqlite3_online ... skipping. internet not available 171s test_Blast_Record ... ok 171s test_CAPS ... ok 172s test_Chi2 ... ok 172s test_ClustalOmega_tool ... skipping. Install clustalo if you want to use Clustal Omega from Biopython. 172s test_Clustalw_tool ... skipping. Install clustalw or clustalw2 if you want to use it from Biopython. 172s test_Cluster ... ok 172s test_CodonTable ... ok 172s test_ColorSpiral ... ok 172s test_Compass ... ok 173s test_Consensus ... ok 173s test_Dialign_tool ... skipping. Install DIALIGN2-2 if you want to use the Bio.Align.Applications wrapper. 173s test_EMBL_unittest ... ok 173s test_Emboss ... skipping. $EMBOSS_ROOT='/usr/lib/emboss' which does not exist! 173s test_EmbossPrimer ... ok 177s test_Entrez ... ok 177s test_Entrez_online ... skipping. internet not available 177s test_Entrez_parser ... ok 177s test_Enzyme ... ok 177s test_ExPASy ... skipping. internet not available 177s test_Fasttree_tool ... skipping. Install FastTree and correctly set the file path to the program if you want to use it from Biopython. 177s test_File ... ok 177s test_GenBank ... ok 179s test_GenomeDiagram ... Warn: Can't find .pfb for face 'Helvetica' 180s ok 181s test_GraphicsChromosome ... ok 181s test_GraphicsDistribution ... ok 182s test_GraphicsGeneral ... ok 182s test_HMMCasino ... ok 182s test_HMMGeneral ... ok 182s test_KEGG ... ok 182s test_KEGG_online ... skipping. internet not available 186s test_KGML_graphics ... ok 186s test_KGML_graphics_online ... skipping. internet not available 187s test_KGML_nographics ... ok 187s test_KeyWList ... ok 187s test_LogisticRegression ... ok 187s test_MafIO_index ... ok 187s test_Mafft_tool ... skipping. Install MAFFT if you want to use the Bio.Align.Applications wrapper. 187s test_MarkovModel ... ok 187s test_Medline ... ok 187s test_Muscle_tool ... skipping. Install MUSCLE if you want to use the Bio.Align.Applications wrapper. 188s test_NCBIXML ... ok 188s test_NCBI_BLAST_tools ... skipping. Install the NCBI BLAST+ command line tools if you want to use the Bio.Blast.Applications wrapper. 188s test_NCBI_qblast ... ok 188s test_NMR ... ok 188s test_NaiveBayes ... ok 188s test_Nexus ... ok 188s test_PAML_baseml ... ok 189s test_PAML_codeml ... ok 189s test_PAML_yn00 ... ok 189s test_PDBList ... skipping. internet not available 191s test_PDB_CEAligner ... ok 191s test_PDB_DSSP ... ok 191s test_PDB_Dice ... ok 192s test_PDB_Disordered ... ok 192s test_PDB_Exposure ... ok 192s test_PDB_FragmentMapper ... ok 193s test_PDB_KDTree ... ok 193s test_PDB_MMCIF2Dict ... ok 193s test_PDB_MMCIFIO ... ok 194s test_PDB_MMCIFParser ... ok 194s test_PDB_NACCESS ... ok 194s test_PDB_PDBIO ... ok 194s test_PDB_PDBParser ... ok 194s 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 194s test_PDB_Polypeptide ... ok 194s test_PDB_QCPSuperimposer ... ok 197s test_PDB_SASA ... ok 197s test_PDB_SMCRA ... ok 197s test_PDB_Selection ... ok 198s test_PDB_StructureAlignment ... ok 198s test_PDB_Superimposer ... ok 198s test_PDB_internal_coords ... skipping. Error: Install mmtf to use Bio.PDB.mmtf (e.g. pip install mmtf-python) 198s 198s test_PDB_parse_pdb_header ... ok 198s test_PDB_vectors ... ok 198s test_PQR ... ok 198s test_Pathway ... ok 198s test_Phd ... ok 198s test_Phylo ... ok 198s test_PhyloXML ... ok 198s test_Phylo_CDAO ... skipping. Install RDFlib if you want to use the CDAO tree format. 199s test_Phylo_NeXML ... ok 199s test_Phylo_matplotlib ... skipping. Install matplotlib if you want to use Bio.Phylo._utils. 199s test_Phylo_networkx ... skipping. Install networkx if you wish to use it with Bio.Phylo 199s test_PopGen_GenePop_nodepend ... ok 199s test_Prank_tool ... skipping. Install PRANK if you want to use the Bio.Align.Applications wrapper. 199s test_Probcons_tool ... skipping. Install PROBCONS if you want to use the Bio.Align.Applications wrapper. 199s test_ProtParam ... ok 199s test_RCSBFormats ... ok 199s test_Restriction ... ok 199s test_SCOP_Astral ... ok 199s test_SCOP_Cla ... ok 199s test_SCOP_Des ... ok 199s test_SCOP_Dom ... ok 199s test_SCOP_Hie ... ok 199s test_SCOP_Raf ... ok 199s test_SCOP_Residues ... ok 199s test_SCOP_Scop ... ok 199s test_SCOP_online ... skipping. internet not available 199s test_SVDSuperimposer ... ok 199s test_SearchIO_blast_tab ... ok 199s test_SearchIO_blast_tab_index ... ok 199s test_SearchIO_blast_xml ... ok 201s test_SearchIO_blast_xml_index ... ok 201s test_SearchIO_blat_psl ... ok 201s test_SearchIO_blat_psl_index ... ok 201s test_SearchIO_exonerate ... ok 201s test_SearchIO_exonerate_text_index ... ok 201s test_SearchIO_exonerate_vulgar_index ... ok 201s test_SearchIO_fasta_m10 ... ok 201s test_SearchIO_fasta_m10_index ... ok 201s test_SearchIO_hhsuite2_text ... ok 201s test_SearchIO_hmmer2_text ... ok 201s test_SearchIO_hmmer2_text_index ... ok 201s test_SearchIO_hmmer3_domtab ... ok 201s test_SearchIO_hmmer3_domtab_index ... ok 201s test_SearchIO_hmmer3_tab ... ok 201s test_SearchIO_hmmer3_tab_index ... ok 201s test_SearchIO_hmmer3_text ... ok 201s test_SearchIO_hmmer3_text_index ... ok 201s test_SearchIO_interproscan_xml ... ok 202s test_SearchIO_model ... ok 202s test_SearchIO_write ... ok 202s test_SeqFeature ... /usr/lib/python3/dist-packages/Bio/SeqFeature.py:1040: BiopythonParserWarning: Attempting to fix invalid location '3..2' as it looks like incorrect origin wrapping. Please fix input file, this could have unintended behavior. 202s warnings.warn( 202s ok 214s test_SeqIO ... ok 214s test_SeqIO_AbiIO ... ok 214s test_SeqIO_FastaIO ... ok 214s test_SeqIO_Gck ... ok 214s test_SeqIO_Insdc ... ok 214s test_SeqIO_NibIO ... ok 216s test_SeqIO_PdbIO ... ok 216s test_SeqIO_QualityIO ... ok 216s test_SeqIO_SeqXML ... ok 216s test_SeqIO_SnapGene ... ok 217s test_SeqIO_TwoBitIO ... ok 217s test_SeqIO_Xdna ... ok 217s test_SeqIO_features ... /usr/lib/python3/dist-packages/Bio/SeqIO/InsdcIO.py:549: BiopythonWarning: Annotation 'swissprot: locus SCX3_BUTOC, accession P01485; class: standard. created: Jul 21, 1986. sequence updated: Jul 21, 1986. annotation updated: Oct 16, 2001. xrefs: gi: gi: 69530 xrefs (non-sequence databases): HSSP P01484, InterPro IPR003614, InterPro IPR002061, InterPro IPR001219, Pfam PF00537, PRINTS PR00284, ProDom PD000908, SMART SM00505' too long for 'DBSOURCE' line 217s warnings.warn( 217s ok 228s test_SeqIO_index ... ok 228s test_SeqIO_online ... skipping. internet not available 228s test_SeqIO_write ... ok 228s test_SeqRecord ... ok 228s test_SeqUtils ... ok 229s test_Seq_objs ... ok 229s test_SffIO ... ok 229s test_SwissProt ... ok 229s test_TCoffee_tool ... skipping. Install TCOFFEE if you want to use the Bio.Align.Applications wrapper. 229s test_TogoWS ... skipping. internet not available 229s test_TreeConstruction ... ok 229s test_UniGene ... ok 229s test_UniProt_GOA ... ok 229s test_Uniprot ... ok 230s test_align ... ok 230s test_align_substitution_matrices ... ok 232s test_bgzf ... ok 232s test_cellosaurus ... ok 235s test_codonalign ... ok 235s test_geo ... ok 236s test_kNN ... ok 236s test_motifs ... ok 236s test_motifs_online ... skipping. internet not available 236s 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. 236s warnings.warn( 236s ok 236s test_pairwise2_no_C ... ok 236s test_pairwise_aligner ... ok 236s test_pairwise_alignment_map ... ok 242s test_phenotype ... ok 242s test_phenotype_fit ... skipping. Install SciPy if you want to use Bio.phenotype fit functionality. 242s 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. 242s test_prodoc ... ok 242s test_prosite ... ok 242s test_raxml_tool ... skipping. Install RAxML (binary raxmlHPC) if you want to test the Bio.Phylo.Applications wrapper. 242s test_samtools_tool ... skipping. Install samtools and correctly set the file path to the program if you want to use it from Biopython 242s test_seq ... ok 242s test_translate ... ok 242s ---------------------------------------------------------------------- 242s Ran 211 tests in 83.527 seconds 242s 242s Skipping any tests requiring internet access 242s Python version: 3.12.7 (main, Oct 3 2024, 15:15:22) [GCC 14.2.0] 242s Operating system: posix linux 242s autopkgtest [09:54:10]: test dependencies: -----------------------] 243s autopkgtest [09:54:11]: test dependencies: - - - - - - - - - - results - - - - - - - - - - 243s dependencies PASS 243s autopkgtest [09:54:11]: test full_suite: preparing testbed 369s autopkgtest [09:56:17]: testbed dpkg architecture: s390x 369s autopkgtest [09:56:17]: testbed apt version: 2.9.8 369s autopkgtest [09:56:17]: @@@@@@@@@@@@@@@@@@@@ test bed setup 370s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 370s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [2840 B] 370s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 370s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [212 kB] 370s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [28.1 kB] 370s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x Packages [42.1 kB] 370s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x Packages [234 kB] 370s Fetched 600 kB in 1s (991 kB/s) 370s Reading package lists... 372s Reading package lists... 372s Building dependency tree... 372s Reading state information... 372s Calculating upgrade... 372s The following packages were automatically installed and are no longer required: 372s libperl5.38t64 perl-modules-5.38 372s Use 'sudo apt autoremove' to remove them. 372s The following NEW packages will be installed: 372s libperl5.40 perl-modules-5.40 python3-jaraco.text 372s The following packages will be upgraded: 372s info install-info libkeyutils1 liblocale-gettext-perl libtext-charwidth-perl 372s libtext-iconv-perl perl perl-base python3-pkg-resources python3-setuptools 372s vim-common vim-tiny xxd 373s 13 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. 373s Need to get 12.6 MB of archives. 373s After this operation, 50.3 MB of additional disk space will be used. 373s Get:1 http://ftpmaster.internal/ubuntu plucky/main s390x perl-modules-5.40 all 5.40.0-6 [3214 kB] 373s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x libperl5.40 s390x 5.40.0-6 [4984 kB] 374s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x perl s390x 5.40.0-6 [262 kB] 374s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x perl-base s390x 5.40.0-6 [1971 kB] 374s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x liblocale-gettext-perl s390x 1.07-7build1 [15.9 kB] 374s Get:6 http://ftpmaster.internal/ubuntu plucky/main s390x libtext-iconv-perl s390x 1.7-8build4 [13.8 kB] 374s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x libtext-charwidth-perl s390x 0.04-11build4 [9646 B] 374s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x install-info s390x 7.1.1-1 [64.8 kB] 374s Get:9 http://ftpmaster.internal/ubuntu plucky/main s390x libkeyutils1 s390x 1.6.3-4ubuntu2 [9960 B] 374s Get:10 http://ftpmaster.internal/ubuntu plucky/main s390x vim-tiny s390x 2:9.1.0777-1ubuntu1 [664 kB] 374s Get:11 http://ftpmaster.internal/ubuntu plucky/main s390x vim-common all 2:9.1.0777-1ubuntu1 [394 kB] 374s Get:12 http://ftpmaster.internal/ubuntu plucky/main s390x xxd s390x 2:9.1.0777-1ubuntu1 [66.5 kB] 374s Get:13 http://ftpmaster.internal/ubuntu plucky/main s390x info s390x 7.1.1-1 [149 kB] 374s Get:14 http://ftpmaster.internal/ubuntu plucky/main s390x python3-jaraco.text all 4.0.0-1 [11.5 kB] 374s Get:15 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-pkg-resources all 75.2.0-1 [134 kB] 374s Get:16 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-setuptools all 75.2.0-1 [657 kB] 374s Fetched 12.6 MB in 1s (10.2 MB/s) 374s (Reading database ... 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(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 ... 57417 files and directories currently installed.) 378s Removing libperl5.38t64:s390x (5.38.2-5) ... 378s Removing perl-modules-5.38 (5.38.2-5) ... 378s Processing triggers for man-db (2.12.1-3) ... 378s Processing triggers for libc-bin (2.40-1ubuntu3) ... 379s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 379s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 379s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 379s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 379s Reading package lists... 380s Reading package lists... 380s Building dependency tree... 380s Reading state information... 380s Calculating upgrade... 380s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 380s Reading package lists... 380s Building dependency tree... 380s Reading state information... 380s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 385s Reading package lists... 385s Building dependency tree... 385s Reading state information... 385s Starting pkgProblemResolver with broken count: 0 385s Starting 2 pkgProblemResolver with broken count: 0 385s Done 385s The following additional packages will be installed: 385s autoconf automake autopoint autotools-dev blt build-essential bwa clustalo 385s cpp cpp-14 cpp-14-s390x-linux-gnu cpp-s390x-linux-gnu debhelper debugedit 385s dh-autoreconf dh-python dh-strip-nondeterminism dialign dssp dwz fasttree 385s flex fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lmodern 385s fonts-lyx fonts-urw-base35 g++ g++-14 g++-14-s390x-linux-gnu 385s g++-s390x-linux-gnu gcc gcc-14 gcc-14-s390x-linux-gnu gcc-s390x-linux-gnu 385s gettext ghostscript hevea hicolor-icon-theme imagemagick 385s imagemagick-6-common imagemagick-6.q16 intltool-debian libaom3 385s libapache-pom-java libarchive-zip-perl libargtable2-0 libasan8 385s libavahi-client3 libavahi-common-data libavahi-common3 libblas3 libcairo2 385s libcc1-0 libcifpp-data libcifpp5 libcommons-logging-java 385s libcommons-parent-java libcups2t64 libde265-0 libdebhelper-perl libdeflate0 385s libexpat1-dev libfftw3-double3 libfile-stripnondeterminism-perl 385s libfontbox-java libfontconfig1 libfontenc1 libfreetype6 libgcc-14-dev 385s libgfortran5 libgomp1 libgraphite2-3 libgs-common libgs10 libgs10-common 385s libharfbuzz0b libheif-plugin-aomdec libheif-plugin-libde265 libheif1 libice6 385s libidn12 libijs-0.35 libimagequant0 libisl23 libitm1 libjbig0 libjbig2dec0 385s libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui libjs-sphinxdoc 385s libjs-underscore libkpathsea6 liblapack3 liblbfgsb0 liblcms2-2 liblqr-1-0 385s libltdl7 libmagickcore-6.q16-7t64 libmagickwand-6.q16-7t64 libmbedcrypto7t64 385s libmbedtls14t64 libmbedx509-1t64 libmpc3 libmpfi0 libmysqlclient21 385s libnetpbm11t64 libopenjp2-7 libpaper-utils libpaper1 libpdfbox-java 385s libpixman-1-0 libpotrace0 libptexenc1 libpython3-all-dev libpython3-dev 385s libpython3.12-dev libqhull-r8.0 libraqm0 libraw23t64 libsharpyuv0 libsm6 385s libstdc++-14-dev libsynctex2 libtcl8.6 libteckit0 libtexlua53-5 libtiff6 385s libtk8.6 libtool libubsan1 libwebp7 libwebpdemux2 libwebpmux3 libxaw7 385s libxcb-render0 libxcb-shm0 libxft2 libxi6 libxmu6 libxpm4 libxrender1 385s libxslt1.1 libxss1 libxt6t64 libzzip-0-13t64 m4 mafft mysql-common 385s ncbi-blast+ ncbi-data netpbm phylip po-debconf poppler-data prank 385s preview-latex-style probcons python-biopython-doc python-matplotlib-data 385s python3-all python3-all-dev python3-appdirs python3-biopython 385s python3-biopython-sql python3-brotli python3-cairo python3-contourpy 385s python3-cycler python3-dateutil python3-decorator python3-dev 385s python3-fonttools python3-freetype python3-fs python3-isodate 385s python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib python3-mmtf 385s python3-mpmath python3-msgpack python3-mysqldb python3-networkx 385s python3-numpy python3-packaging python3-pil python3-pil.imagetk 385s python3-rdflib python3-reportlab python3-rlpycairo python3-scipy python3-six 385s python3-sympy python3-tk python3-tz python3-ufolib2 python3.12-dev 385s python3.12-tk sgml-base t-coffee t1utils tex-common texlive-base 385s texlive-binaries texlive-fonts-recommended texlive-latex-base 385s texlive-latex-extra texlive-latex-recommended texlive-pictures tk8.6-blt2.5 385s unicode-data w3c-sgml-lib wise wise-data x11-common xdg-utils 385s xfonts-encodings xfonts-utils xml-core zlib1g-dev 385s Suggested packages: 385s autoconf-archive gnu-standards autoconf-doc blt-demo samtools cpp-doc 385s gcc-14-locales cpp-14-doc dh-make flit python3-build python3-installer 385s python3-wheel bison flex-doc fonts-freefont-otf | fonts-freefont-ttf 385s fonts-texgyre gcc-14-doc gcc-multilib manpages-dev gdb gcc-doc 385s gdb-s390x-linux-gnu gettext-doc libasprintf-dev libgettextpo-dev hevea-doc 385s imagemagick-6-doc autotrace cups-bsd | lpr | lprng enscript ffmpeg gimp 385s gnuplot grads graphviz hp2xx html2ps libwmf-bin mplayer povray radiance 385s sane-utils transfig libraw-bin libavalon-framework-java 385s libexcalibur-logkit-java liblog4j1.2-java cups-common libfftw3-bin 385s libfftw3-dev libheif-plugin-x265 libheif-plugin-ffmpegdec 385s libheif-plugin-jpegdec libheif-plugin-jpegenc libheif-plugin-j2kdec 385s libheif-plugin-j2kenc libheif-plugin-kvazaar libheif-plugin-rav1e 385s libheif-plugin-svtenc libjs-jquery-ui-docs liblcms2-utils 385s libmagickcore-6.q16-7-extra libmpfi-doc libstdc++-14-doc tcl8.6 tk8.6 385s libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc phylip-doc 385s libmail-box-perl poppler-utils fonts-japanese-mincho | fonts-ipafont-mincho 385s fonts-japanese-gothic | fonts-ipafont-gothic fonts-arphic-ukai 385s fonts-arphic-uming fonts-nanum probcons-extra clustalw emboss muscle3 phyml 385s python3-psycopg2 raxml python-cycler-doc python-lxml-doc cm-super-minimal 385s dvipng fonts-staypuft gir1.2-gtk-3.0 inkscape ipython3 librsvg2-common 385s python-matplotlib-doc python3-cairocffi python3-gi-cairo python3-gobject 385s python3-pyqt5 python3-sip python3-tornado texlive-extra-utils 385s python-mpmath-doc python3-gmpy2 default-mysql-server | virtual-mysql-server 385s python3-gdal python3-pydot python3-pygraphviz gfortran python-numpy-doc 385s python3-pytest python-pil-doc python-rdflib-doc pdf-viewer 385s python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm 385s python-scipy-doc texlive-fonts-extra python-sympy-doc tix python3-tk-dbg 385s python3.13-tk sgml-base-doc boxshade seaview t-coffee-examples perl-tk xpdf 385s | pdf-viewer xzdec hintview texlive-fonts-recommended-doc 385s texlive-latex-base-doc wp2latex icc-profiles libfile-which-perl 385s texlive-latex-extra-doc texlive-science texlive-latex-recommended-doc 385s texlive-luatex texlive-pstricks dot2tex prerex texlive-pictures-doc vprerex 385s wise-doc 385s Recommended packages: 385s libfl-dev libmagickcore-6.q16-7-extra libarchive-cpio-perl 385s fonts-droid-fallback libheif-plugin-aomenc javascript-common libltdl-dev 385s blast2 libwww-perl lynx ruby libmail-sendmail-perl python3-bs4 385s python3-cssselect python3-html5lib python3-olefile python3-sparqlwrapper 385s fonts-dejavu-extra isympy-common amap-align clustalw dialign-tx fsa kalign 385s libsoap-lite-perl libxml-simple-perl muscle mustang poa proda tm-align 385s lmodern dvisvgm tex-gyre tipa default-jre libspreadsheet-parseexcel-perl 385s texlive-plain-generic tk libfile-mimeinfo-perl libnet-dbus-perl 385s libx11-protocol-perl x11-utils x11-xserver-utils 385s The following NEW packages will be installed: 385s autoconf automake autopkgtest-satdep autopoint autotools-dev blt 385s build-essential bwa clustalo cpp cpp-14 cpp-14-s390x-linux-gnu 385s cpp-s390x-linux-gnu debhelper debugedit dh-autoreconf dh-python 385s dh-strip-nondeterminism dialign dssp dwz fasttree flex fontconfig-config 385s fonts-dejavu-core fonts-dejavu-mono fonts-lmodern fonts-lyx fonts-urw-base35 385s g++ g++-14 g++-14-s390x-linux-gnu g++-s390x-linux-gnu gcc gcc-14 385s gcc-14-s390x-linux-gnu gcc-s390x-linux-gnu gettext ghostscript hevea 385s hicolor-icon-theme imagemagick imagemagick-6-common imagemagick-6.q16 385s intltool-debian libaom3 libapache-pom-java libarchive-zip-perl 385s libargtable2-0 libasan8 libavahi-client3 libavahi-common-data 385s libavahi-common3 libblas3 libcairo2 libcc1-0 libcifpp-data libcifpp5 385s libcommons-logging-java libcommons-parent-java libcups2t64 libde265-0 385s libdebhelper-perl libdeflate0 libexpat1-dev libfftw3-double3 385s libfile-stripnondeterminism-perl libfontbox-java libfontconfig1 libfontenc1 385s libfreetype6 libgcc-14-dev libgfortran5 libgomp1 libgraphite2-3 libgs-common 385s libgs10 libgs10-common libharfbuzz0b libheif-plugin-aomdec 385s libheif-plugin-libde265 libheif1 libice6 libidn12 libijs-0.35 libimagequant0 385s libisl23 libitm1 libjbig0 libjbig2dec0 libjpeg-turbo8 libjpeg8 libjs-jquery 385s libjs-jquery-ui libjs-sphinxdoc libjs-underscore libkpathsea6 liblapack3 385s liblbfgsb0 liblcms2-2 liblqr-1-0 libltdl7 libmagickcore-6.q16-7t64 385s libmagickwand-6.q16-7t64 libmbedcrypto7t64 libmbedtls14t64 libmbedx509-1t64 385s libmpc3 libmpfi0 libmysqlclient21 libnetpbm11t64 libopenjp2-7 libpaper-utils 385s libpaper1 libpdfbox-java libpixman-1-0 libpotrace0 libptexenc1 385s libpython3-all-dev libpython3-dev libpython3.12-dev libqhull-r8.0 libraqm0 385s libraw23t64 libsharpyuv0 libsm6 libstdc++-14-dev libsynctex2 libtcl8.6 385s libteckit0 libtexlua53-5 libtiff6 libtk8.6 libtool libubsan1 libwebp7 385s libwebpdemux2 libwebpmux3 libxaw7 libxcb-render0 libxcb-shm0 libxft2 libxi6 385s libxmu6 libxpm4 libxrender1 libxslt1.1 libxss1 libxt6t64 libzzip-0-13t64 m4 385s mafft mysql-common ncbi-blast+ ncbi-data netpbm phylip po-debconf 385s poppler-data prank preview-latex-style probcons python-biopython-doc 385s python-matplotlib-data python3-all python3-all-dev python3-appdirs 385s python3-biopython python3-biopython-sql python3-brotli python3-cairo 385s python3-contourpy python3-cycler python3-dateutil python3-decorator 386s python3-dev python3-fonttools python3-freetype python3-fs python3-isodate 386s python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib python3-mmtf 386s python3-mpmath python3-msgpack python3-mysqldb python3-networkx 386s python3-numpy python3-packaging python3-pil python3-pil.imagetk 386s python3-rdflib python3-reportlab python3-rlpycairo python3-scipy python3-six 386s python3-sympy python3-tk python3-tz python3-ufolib2 python3.12-dev 386s python3.12-tk sgml-base t-coffee t1utils tex-common texlive-base 386s texlive-binaries texlive-fonts-recommended texlive-latex-base 386s texlive-latex-extra texlive-latex-recommended texlive-pictures tk8.6-blt2.5 386s unicode-data w3c-sgml-lib wise wise-data x11-common xdg-utils 386s xfonts-encodings xfonts-utils xml-core zlib1g-dev 386s 0 upgraded, 226 newly installed, 0 to remove and 0 not upgraded. 386s Need to get 306 MB/306 MB of archives. 386s After this operation, 1124 MB of additional disk space will be used. 386s Get:1 /tmp/autopkgtest.U86Tbq/2-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [972 B] 386s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x m4 s390x 1.4.19-4build1 [256 kB] 386s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x flex s390x 2.6.4-8.2build1 [311 kB] 386s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x libgomp1 s390x 14.2.0-7ubuntu1 [151 kB] 386s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x libfftw3-double3 s390x 3.3.10-1ubuntu4 [511 kB] 386s Get:6 http://ftpmaster.internal/ubuntu plucky/main s390x libfreetype6 s390x 2.13.3+dfsg-1 [431 kB] 386s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-mono all 2.37-8 [502 kB] 386s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-core all 2.37-8 [835 kB] 386s Get:9 http://ftpmaster.internal/ubuntu plucky/main s390x libfontenc1 s390x 1:1.1.8-1build1 [14.8 kB] 386s Get:10 http://ftpmaster.internal/ubuntu plucky/main s390x x11-common all 1:7.7+23ubuntu3 [21.7 kB] 386s Get:11 http://ftpmaster.internal/ubuntu plucky/main s390x xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 386s Get:12 http://ftpmaster.internal/ubuntu plucky/main s390x xfonts-utils s390x 1:7.7+7 [101 kB] 386s Get:13 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-urw-base35 all 20200910-8 [11.0 MB] 387s Get:14 http://ftpmaster.internal/ubuntu plucky/main s390x fontconfig-config s390x 2.15.0-1.1ubuntu2 [37.4 kB] 387s Get:15 http://ftpmaster.internal/ubuntu plucky/main s390x libfontconfig1 s390x 2.15.0-1.1ubuntu2 [150 kB] 387s Get:16 http://ftpmaster.internal/ubuntu plucky/main s390x libsharpyuv0 s390x 1.4.0-0.1 [16.2 kB] 387s Get:17 http://ftpmaster.internal/ubuntu plucky/main s390x libaom3 s390x 3.9.1-1 [1463 kB] 387s Get:18 http://ftpmaster.internal/ubuntu plucky/main s390x libheif-plugin-aomdec s390x 1.18.1-2 [11.1 kB] 387s Get:19 http://ftpmaster.internal/ubuntu plucky/main s390x libde265-0 s390x 1.0.15-1build4 [175 kB] 387s Get:20 http://ftpmaster.internal/ubuntu plucky/main s390x libheif-plugin-libde265 s390x 1.18.1-2 [8800 B] 387s Get:21 http://ftpmaster.internal/ubuntu plucky/main s390x libheif1 s390x 1.18.1-2 [312 kB] 387s Get:22 http://ftpmaster.internal/ubuntu plucky/main s390x libjbig0 s390x 2.1-6.1ubuntu2 [33.1 kB] 387s Get:23 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu2 [150 kB] 387s Get:24 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B] 387s Get:25 http://ftpmaster.internal/ubuntu plucky/main s390x liblcms2-2 s390x 2.14-2build1 [172 kB] 387s Get:26 http://ftpmaster.internal/ubuntu plucky/universe s390x liblqr-1-0 s390x 0.4.2-2.1build2 [32.6 kB] 387s Get:27 http://ftpmaster.internal/ubuntu plucky/main s390x libltdl7 s390x 2.4.7-7build1 [41.8 kB] 387s Get:28 http://ftpmaster.internal/ubuntu plucky/main s390x libopenjp2-7 s390x 2.5.0-2ubuntu1 [208 kB] 387s Get:29 http://ftpmaster.internal/ubuntu plucky/main s390x libraw23t64 s390x 0.21.2-2.1build1 [418 kB] 387s Get:30 http://ftpmaster.internal/ubuntu plucky/main s390x libdeflate0 s390x 1.21-1 [46.1 kB] 387s Get:31 http://ftpmaster.internal/ubuntu plucky/main s390x libwebp7 s390x 1.4.0-0.1 [204 kB] 387s Get:32 http://ftpmaster.internal/ubuntu plucky/main s390x libtiff6 s390x 4.5.1+git230720-4ubuntu4 [217 kB] 387s Get:33 http://ftpmaster.internal/ubuntu plucky/main s390x libwebpdemux2 s390x 1.4.0-0.1 [12.2 kB] 387s Get:34 http://ftpmaster.internal/ubuntu plucky/main s390x libwebpmux3 s390x 1.4.0-0.1 [25.3 kB] 387s Get:35 http://ftpmaster.internal/ubuntu plucky/universe s390x imagemagick-6-common all 8:6.9.13.12+dfsg1-1build1 [69.6 kB] 387s Get:36 http://ftpmaster.internal/ubuntu plucky/universe s390x libmagickcore-6.q16-7t64 s390x 8:6.9.13.12+dfsg1-1build1 [1909 kB] 387s Get:37 http://ftpmaster.internal/ubuntu plucky/universe s390x libmagickwand-6.q16-7t64 s390x 8:6.9.13.12+dfsg1-1build1 [344 kB] 387s Get:38 http://ftpmaster.internal/ubuntu plucky/main s390x poppler-data all 0.4.12-1 [2060 kB] 387s Get:39 http://ftpmaster.internal/ubuntu plucky/main s390x sgml-base all 1.31 [11.4 kB] 387s Get:40 http://ftpmaster.internal/ubuntu plucky/main s390x autoconf all 2.72-3 [382 kB] 387s Get:41 http://ftpmaster.internal/ubuntu plucky/main s390x autotools-dev all 20220109.1 [44.9 kB] 387s Get:42 http://ftpmaster.internal/ubuntu plucky/main s390x automake all 1:1.16.5-1.3ubuntu1 [558 kB] 387s Get:43 http://ftpmaster.internal/ubuntu plucky/main s390x autopoint all 0.22.5-2 [616 kB] 387s Get:44 http://ftpmaster.internal/ubuntu plucky/main s390x libtcl8.6 s390x 8.6.14+dfsg-1build1 [1038 kB] 387s Get:45 http://ftpmaster.internal/ubuntu plucky/main s390x libxrender1 s390x 1:0.9.10-1.1build1 [20.4 kB] 387s Get:46 http://ftpmaster.internal/ubuntu plucky/main s390x libxft2 s390x 2.3.6-1build1 [49.6 kB] 387s Get:47 http://ftpmaster.internal/ubuntu plucky/main s390x libxss1 s390x 1:1.2.3-1build3 [7396 B] 387s Get:48 http://ftpmaster.internal/ubuntu plucky/main s390x libtk8.6 s390x 8.6.14-1build1 [833 kB] 387s Get:49 http://ftpmaster.internal/ubuntu plucky/main s390x tk8.6-blt2.5 s390x 2.5.3+dfsg-7build1 [662 kB] 387s Get:50 http://ftpmaster.internal/ubuntu plucky/main s390x blt s390x 2.5.3+dfsg-7build1 [4840 B] 387s Get:51 http://ftpmaster.internal/ubuntu plucky/main s390x libisl23 s390x 0.27-1 [704 kB] 387s Get:52 http://ftpmaster.internal/ubuntu plucky/main s390x libmpc3 s390x 1.3.1-1build2 [57.8 kB] 387s Get:53 http://ftpmaster.internal/ubuntu plucky/main s390x cpp-14-s390x-linux-gnu s390x 14.2.0-7ubuntu1 [9570 kB] 388s Get:54 http://ftpmaster.internal/ubuntu plucky/main s390x cpp-14 s390x 14.2.0-7ubuntu1 [1022 B] 388s Get:55 http://ftpmaster.internal/ubuntu plucky/main s390x cpp-s390x-linux-gnu s390x 4:14.1.0-2ubuntu1 [5452 B] 388s Get:56 http://ftpmaster.internal/ubuntu plucky/main s390x cpp s390x 4:14.1.0-2ubuntu1 [22.4 kB] 388s Get:57 http://ftpmaster.internal/ubuntu plucky/main s390x libcc1-0 s390x 14.2.0-7ubuntu1 [50.6 kB] 388s Get:58 http://ftpmaster.internal/ubuntu plucky/main s390x libitm1 s390x 14.2.0-7ubuntu1 [30.9 kB] 388s Get:59 http://ftpmaster.internal/ubuntu plucky/main s390x libasan8 s390x 14.2.0-7ubuntu1 [2963 kB] 388s Get:60 http://ftpmaster.internal/ubuntu plucky/main s390x libubsan1 s390x 14.2.0-7ubuntu1 [1184 kB] 388s Get:61 http://ftpmaster.internal/ubuntu plucky/main s390x libgcc-14-dev s390x 14.2.0-7ubuntu1 [1037 kB] 388s Get:62 http://ftpmaster.internal/ubuntu plucky/main s390x gcc-14-s390x-linux-gnu s390x 14.2.0-7ubuntu1 [18.7 MB] 388s Get:63 http://ftpmaster.internal/ubuntu plucky/main s390x gcc-14 s390x 14.2.0-7ubuntu1 [515 kB] 388s Get:64 http://ftpmaster.internal/ubuntu plucky/main s390x gcc-s390x-linux-gnu s390x 4:14.1.0-2ubuntu1 [1204 B] 388s Get:65 http://ftpmaster.internal/ubuntu plucky/main s390x gcc s390x 4:14.1.0-2ubuntu1 [4996 B] 388s Get:66 http://ftpmaster.internal/ubuntu plucky/main s390x libstdc++-14-dev s390x 14.2.0-7ubuntu1 [2607 kB] 388s Get:67 http://ftpmaster.internal/ubuntu plucky/main s390x g++-14-s390x-linux-gnu s390x 14.2.0-7ubuntu1 [11.0 MB] 389s Get:68 http://ftpmaster.internal/ubuntu plucky/main s390x g++-14 s390x 14.2.0-7ubuntu1 [19.8 kB] 389s Get:69 http://ftpmaster.internal/ubuntu plucky/main s390x g++-s390x-linux-gnu s390x 4:14.1.0-2ubuntu1 [956 B] 389s Get:70 http://ftpmaster.internal/ubuntu plucky/main s390x g++ s390x 4:14.1.0-2ubuntu1 [1076 B] 389s Get:71 http://ftpmaster.internal/ubuntu plucky/main s390x build-essential s390x 12.10ubuntu1 [4930 B] 389s Get:72 http://ftpmaster.internal/ubuntu plucky/universe s390x bwa s390x 0.7.17-7 [206 kB] 389s Get:73 http://ftpmaster.internal/ubuntu plucky/universe s390x libargtable2-0 s390x 13-2 [15.5 kB] 389s Get:74 http://ftpmaster.internal/ubuntu plucky/universe s390x clustalo s390x 1.2.4-8build1 [218 kB] 389s Get:75 http://ftpmaster.internal/ubuntu plucky/main s390x libdebhelper-perl all 13.20ubuntu1 [94.2 kB] 389s Get:76 http://ftpmaster.internal/ubuntu plucky/main s390x libtool all 2.4.7-7build1 [166 kB] 389s Get:77 http://ftpmaster.internal/ubuntu plucky/main s390x dh-autoreconf all 20 [16.1 kB] 389s Get:78 http://ftpmaster.internal/ubuntu plucky/main s390x libarchive-zip-perl all 1.68-1 [90.2 kB] 389s Get:79 http://ftpmaster.internal/ubuntu plucky/main s390x libfile-stripnondeterminism-perl all 1.14.0-1 [20.1 kB] 389s Get:80 http://ftpmaster.internal/ubuntu plucky/main s390x dh-strip-nondeterminism all 1.14.0-1 [5058 B] 389s Get:81 http://ftpmaster.internal/ubuntu plucky/main s390x debugedit s390x 1:5.0-6 [49.9 kB] 389s Get:82 http://ftpmaster.internal/ubuntu plucky/main s390x dwz s390x 0.15-1build6 [122 kB] 389s Get:83 http://ftpmaster.internal/ubuntu plucky/main s390x gettext s390x 0.22.5-2 [996 kB] 389s Get:84 http://ftpmaster.internal/ubuntu plucky/main s390x intltool-debian all 0.35.0+20060710.6 [23.2 kB] 389s Get:85 http://ftpmaster.internal/ubuntu plucky/main s390x po-debconf all 1.0.21+nmu1 [233 kB] 389s Get:86 http://ftpmaster.internal/ubuntu plucky/main s390x debhelper all 13.20ubuntu1 [893 kB] 389s Get:87 http://ftpmaster.internal/ubuntu plucky/universe s390x dh-python all 6.20240824 [112 kB] 389s Get:88 http://ftpmaster.internal/ubuntu plucky/universe s390x dialign s390x 2.2.1-13 [155 kB] 389s Get:89 http://ftpmaster.internal/ubuntu plucky/universe s390x libcifpp-data all 5.0.7.1-3build1 [450 kB] 389s Get:90 http://ftpmaster.internal/ubuntu plucky/universe s390x libcifpp5 s390x 5.0.7.1-3build1 [1187 kB] 389s Get:91 http://ftpmaster.internal/ubuntu plucky/universe s390x dssp s390x 4.2.2-2 [654 kB] 389s Get:92 http://ftpmaster.internal/ubuntu plucky/universe s390x fonts-lmodern all 2.005-1 [4799 kB] 389s Get:93 http://ftpmaster.internal/ubuntu plucky/universe s390x fonts-lyx all 2.4.1-2 [171 kB] 389s Get:94 http://ftpmaster.internal/ubuntu plucky/main s390x libgs-common all 10.03.1~dfsg1-0ubuntu2 [175 kB] 389s Get:95 http://ftpmaster.internal/ubuntu plucky/main s390x libgs10-common all 10.03.1~dfsg1-0ubuntu2 [488 kB] 389s Get:96 http://ftpmaster.internal/ubuntu plucky/main s390x libavahi-common-data s390x 0.8-13ubuntu6 [29.7 kB] 389s Get:97 http://ftpmaster.internal/ubuntu plucky/main s390x libavahi-common3 s390x 0.8-13ubuntu6 [24.1 kB] 389s Get:98 http://ftpmaster.internal/ubuntu plucky/main s390x libavahi-client3 s390x 0.8-13ubuntu6 [27.2 kB] 389s Get:99 http://ftpmaster.internal/ubuntu plucky/main s390x libcups2t64 s390x 2.4.10-1ubuntu2 [281 kB] 389s Get:100 http://ftpmaster.internal/ubuntu plucky/main s390x libidn12 s390x 1.42-2 [58.5 kB] 389s Get:101 http://ftpmaster.internal/ubuntu plucky/main s390x libijs-0.35 s390x 0.35-15.1build1 [15.5 kB] 389s Get:102 http://ftpmaster.internal/ubuntu plucky/main s390x libjbig2dec0 s390x 0.20-1build3 [69.3 kB] 389s Get:103 http://ftpmaster.internal/ubuntu plucky/main s390x libpaper1 s390x 1.1.29build1 [13.4 kB] 389s Get:104 http://ftpmaster.internal/ubuntu plucky/main s390x libice6 s390x 2:1.0.10-1build3 [44.8 kB] 389s Get:105 http://ftpmaster.internal/ubuntu plucky/main s390x libsm6 s390x 2:1.2.3-1build3 [17.7 kB] 389s Get:106 http://ftpmaster.internal/ubuntu plucky/main s390x libxt6t64 s390x 1:1.2.1-1.2build1 [184 kB] 390s Get:107 http://ftpmaster.internal/ubuntu plucky/main s390x libgs10 s390x 10.03.1~dfsg1-0ubuntu2 [3917 kB] 390s Get:108 http://ftpmaster.internal/ubuntu plucky/main s390x ghostscript s390x 10.03.1~dfsg1-0ubuntu2 [43.5 kB] 390s Get:109 http://ftpmaster.internal/ubuntu plucky/universe s390x libnetpbm11t64 s390x 2:11.07.00-2 [123 kB] 390s Get:110 http://ftpmaster.internal/ubuntu plucky/universe s390x netpbm s390x 2:11.07.00-2 [2185 kB] 390s Get:111 http://ftpmaster.internal/ubuntu plucky/universe s390x tex-common all 6.18 [32.8 kB] 390s Get:112 http://ftpmaster.internal/ubuntu plucky/main s390x libpaper-utils s390x 1.1.29build1 [8442 B] 390s Get:113 http://ftpmaster.internal/ubuntu plucky/main s390x libkpathsea6 s390x 2024.20240313.70630+ds-4 [66.6 kB] 390s Get:114 http://ftpmaster.internal/ubuntu plucky/main s390x libptexenc1 s390x 2024.20240313.70630+ds-4 [43.4 kB] 390s Get:115 http://ftpmaster.internal/ubuntu plucky/main s390x libsynctex2 s390x 2024.20240313.70630+ds-4 [64.5 kB] 390s Get:116 http://ftpmaster.internal/ubuntu plucky/main s390x libtexlua53-5 s390x 2024.20240313.70630+ds-4 [130 kB] 390s Get:117 http://ftpmaster.internal/ubuntu plucky/main s390x t1utils s390x 1.41-4build3 [65.6 kB] 390s Get:118 http://ftpmaster.internal/ubuntu plucky/main s390x libpixman-1-0 s390x 0.42.2-1build1 [206 kB] 390s Get:119 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-render0 s390x 1.17.0-2 [17.0 kB] 390s Get:120 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-shm0 s390x 1.17.0-2 [5862 B] 390s Get:121 http://ftpmaster.internal/ubuntu plucky/main s390x libcairo2 s390x 1.18.2-2 [580 kB] 390s Get:122 http://ftpmaster.internal/ubuntu plucky/main s390x libgraphite2-3 s390x 1.3.14-2ubuntu1 [79.8 kB] 390s Get:123 http://ftpmaster.internal/ubuntu plucky/main s390x libharfbuzz0b s390x 9.0.0-1 [533 kB] 390s Get:124 http://ftpmaster.internal/ubuntu plucky/universe s390x libmpfi0 s390x 1.5.4+ds-3 [34.1 kB] 390s Get:125 http://ftpmaster.internal/ubuntu plucky/universe s390x libpotrace0 s390x 1.16-2build1 [18.7 kB] 390s Get:126 http://ftpmaster.internal/ubuntu plucky/universe s390x libteckit0 s390x 2.5.12+ds1-1 [433 kB] 390s Get:127 http://ftpmaster.internal/ubuntu plucky/main s390x libxmu6 s390x 2:1.1.3-3build2 [53.0 kB] 390s Get:128 http://ftpmaster.internal/ubuntu plucky/main s390x libxpm4 s390x 1:3.5.17-1build2 [41.2 kB] 390s Get:129 http://ftpmaster.internal/ubuntu plucky/main s390x libxaw7 s390x 2:1.0.14-1build2 [204 kB] 390s Get:130 http://ftpmaster.internal/ubuntu plucky/main s390x libxi6 s390x 2:1.8.2-1 [35.4 kB] 390s Get:131 http://ftpmaster.internal/ubuntu plucky/universe s390x libzzip-0-13t64 s390x 0.13.72+dfsg.1-1.2build1 [28.6 kB] 390s Get:132 http://ftpmaster.internal/ubuntu plucky/universe s390x texlive-binaries s390x 2024.20240313.70630+ds-4 [9174 kB] 390s Get:133 http://ftpmaster.internal/ubuntu plucky/main s390x xdg-utils all 1.2.1-0ubuntu1 [67.5 kB] 390s Get:134 http://ftpmaster.internal/ubuntu plucky/universe s390x texlive-base all 2024.20240706-1 [22.5 MB] 391s Get:135 http://ftpmaster.internal/ubuntu plucky/main s390x hicolor-icon-theme all 0.18-1 [13.5 kB] 391s Get:136 http://ftpmaster.internal/ubuntu plucky/universe s390x imagemagick-6.q16 s390x 8:6.9.13.12+dfsg1-1build1 [254 kB] 391s Get:137 http://ftpmaster.internal/ubuntu plucky/universe s390x imagemagick s390x 8:6.9.13.12+dfsg1-1build1 [14.2 kB] 391s Get:138 http://ftpmaster.internal/ubuntu plucky/universe s390x hevea s390x 2.36-2 [2045 kB] 391s Get:139 http://ftpmaster.internal/ubuntu plucky/universe s390x libapache-pom-java all 29-2 [5284 B] 391s Get:140 http://ftpmaster.internal/ubuntu plucky/main s390x libblas3 s390x 3.12.0-3build2 [238 kB] 391s Get:141 http://ftpmaster.internal/ubuntu plucky/universe s390x libcommons-parent-java all 56-1 [10.7 kB] 391s Get:142 http://ftpmaster.internal/ubuntu plucky/universe s390x libcommons-logging-java all 1.3.0-1ubuntu1 [63.8 kB] 391s Get:143 http://ftpmaster.internal/ubuntu plucky/main s390x libexpat1-dev s390x 2.6.2-2 [146 kB] 391s Get:144 http://ftpmaster.internal/ubuntu plucky/main s390x libgfortran5 s390x 14.2.0-7ubuntu1 [587 kB] 391s Get:145 http://ftpmaster.internal/ubuntu plucky/main s390x libimagequant0 s390x 2.18.0-1build1 [43.3 kB] 391s Get:146 http://ftpmaster.internal/ubuntu plucky/main s390x libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 391s Get:147 http://ftpmaster.internal/ubuntu plucky/universe s390x libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 391s Get:148 http://ftpmaster.internal/ubuntu plucky/main s390x libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 391s Get:149 http://ftpmaster.internal/ubuntu plucky/main s390x libjs-sphinxdoc all 7.4.7-3 [157 kB] 391s Get:150 http://ftpmaster.internal/ubuntu plucky/main s390x liblapack3 s390x 3.12.0-3build2 [2953 kB] 391s Get:151 http://ftpmaster.internal/ubuntu plucky/universe s390x liblbfgsb0 s390x 3.0+dfsg.4-1build1 [32.4 kB] 391s Get:152 http://ftpmaster.internal/ubuntu plucky/universe s390x libmbedcrypto7t64 s390x 2.28.8-1 [219 kB] 391s Get:153 http://ftpmaster.internal/ubuntu plucky/universe s390x libmbedx509-1t64 s390x 2.28.8-1 [46.2 kB] 391s Get:154 http://ftpmaster.internal/ubuntu plucky/universe s390x libmbedtls14t64 s390x 2.28.8-1 [84.7 kB] 391s Get:155 http://ftpmaster.internal/ubuntu plucky/main s390x mysql-common all 5.8+1.1.1 [6800 B] 391s Get:156 http://ftpmaster.internal/ubuntu plucky/main s390x libmysqlclient21 s390x 8.0.39-1 [1294 kB] 391s Get:157 http://ftpmaster.internal/ubuntu plucky/main s390x zlib1g-dev s390x 1:1.3.dfsg+really1.3.1-1ubuntu1 [898 kB] 391s Get:158 http://ftpmaster.internal/ubuntu plucky/main s390x libpython3.12-dev s390x 3.12.7-1 [5838 kB] 391s Get:159 http://ftpmaster.internal/ubuntu plucky/main s390x libpython3-dev s390x 3.12.6-0ubuntu1 [10.2 kB] 391s Get:160 http://ftpmaster.internal/ubuntu plucky/main s390x libpython3-all-dev s390x 3.12.6-0ubuntu1 [918 B] 391s Get:161 http://ftpmaster.internal/ubuntu plucky/universe s390x libqhull-r8.0 s390x 2020.2-6build1 [199 kB] 391s Get:162 http://ftpmaster.internal/ubuntu plucky/main s390x libraqm0 s390x 0.10.1-1build1 [16.2 kB] 391s Get:163 http://ftpmaster.internal/ubuntu plucky/main s390x libxslt1.1 s390x 1.1.39-0exp1ubuntu1 [169 kB] 391s Get:164 http://ftpmaster.internal/ubuntu plucky/universe s390x mafft s390x 7.505-1 [766 kB] 391s Get:165 http://ftpmaster.internal/ubuntu plucky/universe s390x ncbi-data all 6.1.20170106+dfsg2-3 [3966 kB] 391s Get:166 http://ftpmaster.internal/ubuntu plucky/universe s390x ncbi-blast+ s390x 2.16.0+ds-6 [15.2 MB] 392s Get:167 http://ftpmaster.internal/ubuntu plucky/universe s390x phylip s390x 1:3.697+dfsg-4build1 [1051 kB] 392s Get:168 http://ftpmaster.internal/ubuntu plucky/universe s390x prank s390x 0.0.170427+dfsg-3 [357 kB] 392s Get:169 http://ftpmaster.internal/ubuntu plucky/universe s390x preview-latex-style all 13.2-1 [347 kB] 392s Get:170 http://ftpmaster.internal/ubuntu plucky/universe s390x probcons s390x 1.12-14 [109 kB] 392s Get:171 http://ftpmaster.internal/ubuntu plucky/universe s390x python-biopython-doc all 1.83+dfsg1-3 [17.4 MB] 392s Get:172 http://ftpmaster.internal/ubuntu plucky/universe s390x python-matplotlib-data all 3.8.3-3 [2928 kB] 392s Get:173 http://ftpmaster.internal/ubuntu plucky/main s390x python3-all s390x 3.12.6-0ubuntu1 [890 B] 392s Get:174 http://ftpmaster.internal/ubuntu plucky/main s390x python3.12-dev s390x 3.12.7-1 [504 kB] 392s Get:175 http://ftpmaster.internal/ubuntu plucky/main s390x python3-dev s390x 3.12.6-0ubuntu1 [26.7 kB] 392s Get:176 http://ftpmaster.internal/ubuntu plucky/main s390x python3-all-dev s390x 3.12.6-0ubuntu1 [912 B] 392s Get:177 http://ftpmaster.internal/ubuntu plucky/main s390x python3-appdirs all 1.4.4-4 [10.9 kB] 392s Get:178 http://ftpmaster.internal/ubuntu plucky/main s390x python3-numpy s390x 1:1.26.4+ds-11build1 [4113 kB] 392s Get:179 http://ftpmaster.internal/ubuntu plucky/main s390x python3.12-tk s390x 3.12.7-1 [117 kB] 392s Get:180 http://ftpmaster.internal/ubuntu plucky/main s390x python3-tk s390x 3.12.6-1ubuntu1 [9806 B] 392s Get:181 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pil.imagetk s390x 10.4.0-1ubuntu1 [9314 B] 392s Get:182 http://ftpmaster.internal/ubuntu plucky/main s390x python3-pil s390x 10.4.0-1ubuntu1 [492 kB] 393s Get:183 http://ftpmaster.internal/ubuntu plucky/main s390x python3-cairo s390x 1.26.1-2 [119 kB] 393s Get:184 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-freetype all 2.4.0-2 [81.3 kB] 393s Get:185 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-rlpycairo all 0.3.0-3 [9130 B] 393s Get:186 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-reportlab all 4.2.2-1 [1130 kB] 393s Get:187 http://ftpmaster.internal/ubuntu plucky/main s390x xml-core all 0.19 [20.3 kB] 393s Get:188 http://ftpmaster.internal/ubuntu plucky/universe s390x w3c-sgml-lib all 1.3-3 [280 kB] 393s Get:189 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-biopython s390x 1.83+dfsg1-3 [1680 kB] 393s Get:190 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-biopython-sql all 1.83+dfsg1-3 [25.7 kB] 393s Get:191 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-brotli s390x 1.1.0-2build2 [376 kB] 393s Get:192 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-contourpy s390x 1.2.1-1 [189 kB] 393s Get:193 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-cycler all 0.12.1-1 [9716 B] 393s Get:194 http://ftpmaster.internal/ubuntu plucky/main s390x python3-six all 1.16.0-7 [13.1 kB] 393s Get:195 http://ftpmaster.internal/ubuntu plucky/main s390x python3-dateutil all 2.9.0-2 [80.3 kB] 393s Get:196 http://ftpmaster.internal/ubuntu plucky/main s390x python3-decorator all 5.1.1-5 [10.1 kB] 393s Get:197 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-scipy s390x 1.13.1-3 [17.5 MB] 393s Get:198 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-ufolib2 all 0.16.0+dfsg1-1 [33.5 kB] 393s Get:199 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-mpmath all 1.3.0-1 [425 kB] 393s Get:200 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-sympy all 1.13.1-1 [4228 kB] 393s Get:201 http://ftpmaster.internal/ubuntu plucky/main s390x python3-tz all 2024.1-2 [31.4 kB] 393s Get:202 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-fs all 2.4.16-4 [91.3 kB] 393s Get:203 http://ftpmaster.internal/ubuntu plucky/main s390x python3-lxml s390x 5.3.0-1 [1314 kB] 393s Get:204 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-lz4 s390x 4.0.2+dfsg-1build4 [26.4 kB] 393s Get:205 http://ftpmaster.internal/ubuntu plucky/universe s390x unicode-data all 15.1.0-1 [8878 kB] 394s Get:206 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-fonttools s390x 4.46.0-1build2 [1453 kB] 394s Get:207 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-isodate all 0.6.1-3 [24.3 kB] 394s Get:208 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-kiwisolver s390x 1.4.5-1 [52.6 kB] 394s Get:209 http://ftpmaster.internal/ubuntu plucky/main s390x python3-packaging all 24.1-1 [41.4 kB] 394s Get:210 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-matplotlib s390x 3.8.3-3 [4554 kB] 394s Get:211 http://ftpmaster.internal/ubuntu plucky/main s390x python3-msgpack s390x 1.0.3-3build2 [85.0 kB] 394s Get:212 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-mmtf all 1.1.3-1 [16.2 kB] 394s Get:213 http://ftpmaster.internal/ubuntu plucky/main s390x python3-mysqldb s390x 1.4.6-2build3 [47.5 kB] 394s Get:214 http://ftpmaster.internal/ubuntu plucky/main s390x python3-networkx all 3.2.1-4ubuntu1 [11.5 MB] 395s Get:215 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-rdflib all 7.0.0-1 [405 kB] 395s Get:216 http://ftpmaster.internal/ubuntu plucky/universe s390x t-coffee s390x 13.45.0.4846264+really13.41.0.28bdc39+dfsg-1 [945 kB] 395s Get:217 http://ftpmaster.internal/ubuntu plucky/universe s390x texlive-fonts-recommended all 2024.20240706-1 [4973 kB] 395s Get:218 http://ftpmaster.internal/ubuntu plucky/universe s390x texlive-latex-base all 2024.20240706-1 [1256 kB] 395s Get:219 http://ftpmaster.internal/ubuntu plucky/universe s390x libfontbox-java all 1:1.8.16-5 [208 kB] 395s Get:220 http://ftpmaster.internal/ubuntu plucky/universe s390x libpdfbox-java all 1:1.8.16-5 [5521 kB] 395s Get:221 http://ftpmaster.internal/ubuntu plucky/universe s390x texlive-latex-recommended all 2024.20240706-1 [8830 kB] 395s Get:222 http://ftpmaster.internal/ubuntu plucky/universe s390x texlive-pictures all 2024.20240706-1 [17.0 MB] 396s Get:223 http://ftpmaster.internal/ubuntu plucky/universe s390x texlive-latex-extra all 2024.20240706-2 [19.6 MB] 396s Get:224 http://ftpmaster.internal/ubuntu plucky/universe s390x wise-data all 2.4.1-25 [83.0 kB] 396s Get:225 http://ftpmaster.internal/ubuntu plucky/universe s390x wise s390x 2.4.1-25 [935 kB] 396s Get:226 http://ftpmaster.internal/ubuntu plucky/universe s390x fasttree s390x 2.1.11-2 [190 kB] 397s Preconfiguring packages ... 397s Fetched 306 MB in 11s (27.9 MB/s) 397s Selecting previously unselected package m4. 397s (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 ... 55484 files and directories currently installed.) 397s Preparing to unpack .../000-m4_1.4.19-4build1_s390x.deb ... 397s Unpacking m4 (1.4.19-4build1) ... 397s Selecting previously unselected package flex. 397s Preparing to unpack .../001-flex_2.6.4-8.2build1_s390x.deb ... 397s Unpacking flex (2.6.4-8.2build1) ... 397s Selecting previously unselected package libgomp1:s390x. 397s Preparing to unpack .../002-libgomp1_14.2.0-7ubuntu1_s390x.deb ... 397s Unpacking libgomp1:s390x (14.2.0-7ubuntu1) ... 397s Selecting previously unselected package libfftw3-double3:s390x. 397s Preparing to unpack .../003-libfftw3-double3_3.3.10-1ubuntu4_s390x.deb ... 397s Unpacking libfftw3-double3:s390x (3.3.10-1ubuntu4) ... 397s Selecting previously unselected package libfreetype6:s390x. 397s Preparing to unpack .../004-libfreetype6_2.13.3+dfsg-1_s390x.deb ... 397s Unpacking libfreetype6:s390x (2.13.3+dfsg-1) ... 397s Selecting previously unselected package fonts-dejavu-mono. 397s Preparing to unpack .../005-fonts-dejavu-mono_2.37-8_all.deb ... 397s Unpacking fonts-dejavu-mono (2.37-8) ... 397s Selecting previously unselected package fonts-dejavu-core. 397s Preparing to unpack .../006-fonts-dejavu-core_2.37-8_all.deb ... 397s Unpacking fonts-dejavu-core (2.37-8) ... 397s Selecting previously unselected package libfontenc1:s390x. 397s Preparing to unpack .../007-libfontenc1_1%3a1.1.8-1build1_s390x.deb ... 397s Unpacking libfontenc1:s390x (1:1.1.8-1build1) ... 397s Selecting previously unselected package x11-common. 397s Preparing to unpack .../008-x11-common_1%3a7.7+23ubuntu3_all.deb ... 397s Unpacking x11-common (1:7.7+23ubuntu3) ... 397s Selecting previously unselected package xfonts-encodings. 397s Preparing to unpack .../009-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 397s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 397s Selecting previously unselected package xfonts-utils. 397s Preparing to unpack .../010-xfonts-utils_1%3a7.7+7_s390x.deb ... 397s Unpacking xfonts-utils (1:7.7+7) ... 397s Selecting previously unselected package fonts-urw-base35. 397s Preparing to unpack .../011-fonts-urw-base35_20200910-8_all.deb ... 397s Unpacking fonts-urw-base35 (20200910-8) ... 397s Selecting previously unselected package fontconfig-config. 397s Preparing to unpack .../012-fontconfig-config_2.15.0-1.1ubuntu2_s390x.deb ... 398s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 398s Selecting previously unselected package libfontconfig1:s390x. 398s Preparing to unpack .../013-libfontconfig1_2.15.0-1.1ubuntu2_s390x.deb ... 398s Unpacking libfontconfig1:s390x (2.15.0-1.1ubuntu2) ... 398s Selecting previously unselected package libsharpyuv0:s390x. 398s Preparing to unpack .../014-libsharpyuv0_1.4.0-0.1_s390x.deb ... 398s Unpacking libsharpyuv0:s390x (1.4.0-0.1) ... 398s Selecting previously unselected package libaom3:s390x. 398s Preparing to unpack .../015-libaom3_3.9.1-1_s390x.deb ... 398s Unpacking libaom3:s390x (3.9.1-1) ... 398s Selecting previously unselected package libheif-plugin-aomdec:s390x. 398s Preparing to unpack .../016-libheif-plugin-aomdec_1.18.1-2_s390x.deb ... 398s Unpacking libheif-plugin-aomdec:s390x (1.18.1-2) ... 398s Selecting previously unselected package libde265-0:s390x. 398s Preparing to unpack .../017-libde265-0_1.0.15-1build4_s390x.deb ... 398s Unpacking libde265-0:s390x (1.0.15-1build4) ... 398s Selecting previously unselected package libheif-plugin-libde265:s390x. 398s Preparing to unpack .../018-libheif-plugin-libde265_1.18.1-2_s390x.deb ... 398s Unpacking libheif-plugin-libde265:s390x (1.18.1-2) ... 398s Selecting previously unselected package libheif1:s390x. 398s Preparing to unpack .../019-libheif1_1.18.1-2_s390x.deb ... 398s Unpacking libheif1:s390x (1.18.1-2) ... 398s Selecting previously unselected package libjbig0:s390x. 398s Preparing to unpack .../020-libjbig0_2.1-6.1ubuntu2_s390x.deb ... 398s Unpacking libjbig0:s390x (2.1-6.1ubuntu2) ... 398s Selecting previously unselected package libjpeg-turbo8:s390x. 398s Preparing to unpack .../021-libjpeg-turbo8_2.1.5-2ubuntu2_s390x.deb ... 398s Unpacking libjpeg-turbo8:s390x (2.1.5-2ubuntu2) ... 398s Selecting previously unselected package libjpeg8:s390x. 398s Preparing to unpack .../022-libjpeg8_8c-2ubuntu11_s390x.deb ... 398s Unpacking libjpeg8:s390x (8c-2ubuntu11) ... 398s Selecting previously unselected package liblcms2-2:s390x. 398s Preparing to unpack .../023-liblcms2-2_2.14-2build1_s390x.deb ... 398s Unpacking liblcms2-2:s390x (2.14-2build1) ... 398s Selecting previously unselected package liblqr-1-0:s390x. 398s Preparing to unpack .../024-liblqr-1-0_0.4.2-2.1build2_s390x.deb ... 398s Unpacking liblqr-1-0:s390x (0.4.2-2.1build2) ... 398s Selecting previously unselected package libltdl7:s390x. 398s Preparing to unpack .../025-libltdl7_2.4.7-7build1_s390x.deb ... 398s Unpacking libltdl7:s390x (2.4.7-7build1) ... 398s Selecting previously unselected package libopenjp2-7:s390x. 398s Preparing to unpack .../026-libopenjp2-7_2.5.0-2ubuntu1_s390x.deb ... 398s Unpacking libopenjp2-7:s390x (2.5.0-2ubuntu1) ... 398s Selecting previously unselected package libraw23t64:s390x. 398s Preparing to unpack .../027-libraw23t64_0.21.2-2.1build1_s390x.deb ... 398s Unpacking libraw23t64:s390x (0.21.2-2.1build1) ... 398s Selecting previously unselected package libdeflate0:s390x. 398s Preparing to unpack .../028-libdeflate0_1.21-1_s390x.deb ... 398s Unpacking libdeflate0:s390x (1.21-1) ... 398s Selecting previously unselected package libwebp7:s390x. 398s Preparing to unpack .../029-libwebp7_1.4.0-0.1_s390x.deb ... 398s Unpacking libwebp7:s390x (1.4.0-0.1) ... 398s Selecting previously unselected package libtiff6:s390x. 398s Preparing to unpack .../030-libtiff6_4.5.1+git230720-4ubuntu4_s390x.deb ... 398s Unpacking libtiff6:s390x (4.5.1+git230720-4ubuntu4) ... 398s Selecting previously unselected package libwebpdemux2:s390x. 398s Preparing to unpack .../031-libwebpdemux2_1.4.0-0.1_s390x.deb ... 398s Unpacking libwebpdemux2:s390x (1.4.0-0.1) ... 398s Selecting previously unselected package libwebpmux3:s390x. 398s Preparing to unpack .../032-libwebpmux3_1.4.0-0.1_s390x.deb ... 398s Unpacking libwebpmux3:s390x (1.4.0-0.1) ... 398s Selecting previously unselected package imagemagick-6-common. 398s Preparing to unpack .../033-imagemagick-6-common_8%3a6.9.13.12+dfsg1-1build1_all.deb ... 398s Unpacking imagemagick-6-common (8:6.9.13.12+dfsg1-1build1) ... 398s Selecting previously unselected package libmagickcore-6.q16-7t64:s390x. 398s Preparing to unpack .../034-libmagickcore-6.q16-7t64_8%3a6.9.13.12+dfsg1-1build1_s390x.deb ... 398s Unpacking libmagickcore-6.q16-7t64:s390x (8:6.9.13.12+dfsg1-1build1) ... 398s Selecting previously unselected package libmagickwand-6.q16-7t64:s390x. 398s Preparing to unpack .../035-libmagickwand-6.q16-7t64_8%3a6.9.13.12+dfsg1-1build1_s390x.deb ... 398s Unpacking libmagickwand-6.q16-7t64:s390x (8:6.9.13.12+dfsg1-1build1) ... 398s Selecting previously unselected package poppler-data. 398s Preparing to unpack .../036-poppler-data_0.4.12-1_all.deb ... 398s Unpacking poppler-data (0.4.12-1) ... 398s Selecting previously unselected package sgml-base. 398s Preparing to unpack .../037-sgml-base_1.31_all.deb ... 398s Unpacking sgml-base (1.31) ... 398s Selecting previously unselected package autoconf. 398s Preparing to unpack .../038-autoconf_2.72-3_all.deb ... 398s Unpacking autoconf (2.72-3) ... 398s Selecting previously unselected package autotools-dev. 398s Preparing to unpack .../039-autotools-dev_20220109.1_all.deb ... 398s Unpacking autotools-dev (20220109.1) ... 398s Selecting previously unselected package automake. 398s Preparing to unpack .../040-automake_1%3a1.16.5-1.3ubuntu1_all.deb ... 398s Unpacking automake (1:1.16.5-1.3ubuntu1) ... 398s Selecting previously unselected package autopoint. 398s Preparing to unpack .../041-autopoint_0.22.5-2_all.deb ... 398s Unpacking autopoint (0.22.5-2) ... 398s Selecting previously unselected package libtcl8.6:s390x. 398s Preparing to unpack .../042-libtcl8.6_8.6.14+dfsg-1build1_s390x.deb ... 398s Unpacking libtcl8.6:s390x (8.6.14+dfsg-1build1) ... 398s Selecting previously unselected package libxrender1:s390x. 398s Preparing to unpack .../043-libxrender1_1%3a0.9.10-1.1build1_s390x.deb ... 398s Unpacking libxrender1:s390x (1:0.9.10-1.1build1) ... 398s Selecting previously unselected package libxft2:s390x. 398s Preparing to unpack .../044-libxft2_2.3.6-1build1_s390x.deb ... 398s Unpacking libxft2:s390x (2.3.6-1build1) ... 398s Selecting previously unselected package libxss1:s390x. 398s Preparing to unpack .../045-libxss1_1%3a1.2.3-1build3_s390x.deb ... 398s Unpacking libxss1:s390x (1:1.2.3-1build3) ... 398s Selecting previously unselected package libtk8.6:s390x. 398s Preparing to unpack .../046-libtk8.6_8.6.14-1build1_s390x.deb ... 398s Unpacking libtk8.6:s390x (8.6.14-1build1) ... 398s Selecting previously unselected package tk8.6-blt2.5. 398s Preparing to unpack .../047-tk8.6-blt2.5_2.5.3+dfsg-7build1_s390x.deb ... 398s Unpacking tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 398s Selecting previously unselected package blt. 398s Preparing to unpack .../048-blt_2.5.3+dfsg-7build1_s390x.deb ... 398s Unpacking blt (2.5.3+dfsg-7build1) ... 398s Selecting previously unselected package libisl23:s390x. 398s Preparing to unpack .../049-libisl23_0.27-1_s390x.deb ... 398s Unpacking libisl23:s390x (0.27-1) ... 398s Selecting previously unselected package libmpc3:s390x. 398s Preparing to unpack .../050-libmpc3_1.3.1-1build2_s390x.deb ... 398s Unpacking libmpc3:s390x (1.3.1-1build2) ... 398s Selecting previously unselected package cpp-14-s390x-linux-gnu. 398s Preparing to unpack .../051-cpp-14-s390x-linux-gnu_14.2.0-7ubuntu1_s390x.deb ... 398s Unpacking cpp-14-s390x-linux-gnu (14.2.0-7ubuntu1) ... 398s Selecting previously unselected package cpp-14. 398s Preparing to unpack .../052-cpp-14_14.2.0-7ubuntu1_s390x.deb ... 398s Unpacking cpp-14 (14.2.0-7ubuntu1) ... 398s Selecting previously unselected package cpp-s390x-linux-gnu. 398s Preparing to unpack .../053-cpp-s390x-linux-gnu_4%3a14.1.0-2ubuntu1_s390x.deb ... 398s Unpacking cpp-s390x-linux-gnu (4:14.1.0-2ubuntu1) ... 398s Selecting previously unselected package cpp. 398s Preparing to unpack .../054-cpp_4%3a14.1.0-2ubuntu1_s390x.deb ... 398s Unpacking cpp (4:14.1.0-2ubuntu1) ... 398s Selecting previously unselected package libcc1-0:s390x. 398s Preparing to unpack .../055-libcc1-0_14.2.0-7ubuntu1_s390x.deb ... 398s Unpacking libcc1-0:s390x (14.2.0-7ubuntu1) ... 398s Selecting previously unselected package libitm1:s390x. 398s Preparing to unpack .../056-libitm1_14.2.0-7ubuntu1_s390x.deb ... 398s Unpacking libitm1:s390x (14.2.0-7ubuntu1) ... 398s Selecting previously unselected package libasan8:s390x. 398s Preparing to unpack .../057-libasan8_14.2.0-7ubuntu1_s390x.deb ... 398s Unpacking libasan8:s390x (14.2.0-7ubuntu1) ... 399s Selecting previously unselected package libubsan1:s390x. 399s Preparing to unpack .../058-libubsan1_14.2.0-7ubuntu1_s390x.deb ... 399s Unpacking libubsan1:s390x (14.2.0-7ubuntu1) ... 399s Selecting previously unselected package libgcc-14-dev:s390x. 399s Preparing to unpack .../059-libgcc-14-dev_14.2.0-7ubuntu1_s390x.deb ... 399s Unpacking libgcc-14-dev:s390x (14.2.0-7ubuntu1) ... 399s Selecting previously unselected package gcc-14-s390x-linux-gnu. 399s Preparing to unpack .../060-gcc-14-s390x-linux-gnu_14.2.0-7ubuntu1_s390x.deb ... 399s Unpacking gcc-14-s390x-linux-gnu (14.2.0-7ubuntu1) ... 399s Selecting previously unselected package gcc-14. 399s Preparing to unpack .../061-gcc-14_14.2.0-7ubuntu1_s390x.deb ... 399s Unpacking gcc-14 (14.2.0-7ubuntu1) ... 399s Selecting previously unselected package gcc-s390x-linux-gnu. 399s Preparing to unpack .../062-gcc-s390x-linux-gnu_4%3a14.1.0-2ubuntu1_s390x.deb ... 399s Unpacking gcc-s390x-linux-gnu (4:14.1.0-2ubuntu1) ... 399s Selecting previously unselected package gcc. 399s Preparing to unpack .../063-gcc_4%3a14.1.0-2ubuntu1_s390x.deb ... 399s Unpacking gcc (4:14.1.0-2ubuntu1) ... 399s Selecting previously unselected package libstdc++-14-dev:s390x. 399s Preparing to unpack .../064-libstdc++-14-dev_14.2.0-7ubuntu1_s390x.deb ... 399s Unpacking libstdc++-14-dev:s390x (14.2.0-7ubuntu1) ... 399s Selecting previously unselected package g++-14-s390x-linux-gnu. 399s Preparing to unpack .../065-g++-14-s390x-linux-gnu_14.2.0-7ubuntu1_s390x.deb ... 399s Unpacking g++-14-s390x-linux-gnu (14.2.0-7ubuntu1) ... 399s Selecting previously unselected package g++-14. 399s Preparing to unpack .../066-g++-14_14.2.0-7ubuntu1_s390x.deb ... 399s Unpacking g++-14 (14.2.0-7ubuntu1) ... 399s Selecting previously unselected package g++-s390x-linux-gnu. 399s Preparing to unpack .../067-g++-s390x-linux-gnu_4%3a14.1.0-2ubuntu1_s390x.deb ... 399s Unpacking g++-s390x-linux-gnu (4:14.1.0-2ubuntu1) ... 399s Selecting previously unselected package g++. 399s Preparing to unpack .../068-g++_4%3a14.1.0-2ubuntu1_s390x.deb ... 399s Unpacking g++ (4:14.1.0-2ubuntu1) ... 399s Selecting previously unselected package build-essential. 399s Preparing to unpack .../069-build-essential_12.10ubuntu1_s390x.deb ... 399s Unpacking build-essential (12.10ubuntu1) ... 399s Selecting previously unselected package bwa. 399s Preparing to unpack .../070-bwa_0.7.17-7_s390x.deb ... 399s Unpacking bwa (0.7.17-7) ... 399s Selecting previously unselected package libargtable2-0. 399s Preparing to unpack .../071-libargtable2-0_13-2_s390x.deb ... 399s Unpacking libargtable2-0 (13-2) ... 399s Selecting previously unselected package clustalo. 399s Preparing to unpack .../072-clustalo_1.2.4-8build1_s390x.deb ... 399s Unpacking clustalo (1.2.4-8build1) ... 399s Selecting previously unselected package libdebhelper-perl. 399s Preparing to unpack .../073-libdebhelper-perl_13.20ubuntu1_all.deb ... 399s Unpacking libdebhelper-perl (13.20ubuntu1) ... 399s Selecting previously unselected package libtool. 399s Preparing to unpack .../074-libtool_2.4.7-7build1_all.deb ... 399s Unpacking libtool (2.4.7-7build1) ... 399s Selecting previously unselected package dh-autoreconf. 399s Preparing to unpack .../075-dh-autoreconf_20_all.deb ... 399s Unpacking dh-autoreconf (20) ... 399s Selecting previously unselected package libarchive-zip-perl. 399s Preparing to unpack .../076-libarchive-zip-perl_1.68-1_all.deb ... 399s Unpacking libarchive-zip-perl (1.68-1) ... 399s Selecting previously unselected package libfile-stripnondeterminism-perl. 399s Preparing to unpack .../077-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... 399s Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... 399s Selecting previously unselected package dh-strip-nondeterminism. 399s Preparing to unpack .../078-dh-strip-nondeterminism_1.14.0-1_all.deb ... 399s Unpacking dh-strip-nondeterminism (1.14.0-1) ... 399s Selecting previously unselected package debugedit. 399s Preparing to unpack .../079-debugedit_1%3a5.0-6_s390x.deb ... 399s Unpacking debugedit (1:5.0-6) ... 399s Selecting previously unselected package dwz. 399s Preparing to unpack .../080-dwz_0.15-1build6_s390x.deb ... 399s Unpacking dwz (0.15-1build6) ... 399s Selecting previously unselected package gettext. 399s Preparing to unpack .../081-gettext_0.22.5-2_s390x.deb ... 399s Unpacking gettext (0.22.5-2) ... 399s Selecting previously unselected package intltool-debian. 399s Preparing to unpack .../082-intltool-debian_0.35.0+20060710.6_all.deb ... 399s Unpacking intltool-debian (0.35.0+20060710.6) ... 399s Selecting previously unselected package po-debconf. 399s Preparing to unpack .../083-po-debconf_1.0.21+nmu1_all.deb ... 399s Unpacking po-debconf (1.0.21+nmu1) ... 399s Selecting previously unselected package debhelper. 399s Preparing to unpack .../084-debhelper_13.20ubuntu1_all.deb ... 399s Unpacking debhelper (13.20ubuntu1) ... 399s Selecting previously unselected package dh-python. 399s Preparing to unpack .../085-dh-python_6.20240824_all.deb ... 399s Unpacking dh-python (6.20240824) ... 399s Selecting previously unselected package dialign. 399s Preparing to unpack .../086-dialign_2.2.1-13_s390x.deb ... 399s Unpacking dialign (2.2.1-13) ... 399s Selecting previously unselected package libcifpp-data. 399s Preparing to unpack .../087-libcifpp-data_5.0.7.1-3build1_all.deb ... 399s Unpacking libcifpp-data (5.0.7.1-3build1) ... 399s Selecting previously unselected package libcifpp5:s390x. 399s Preparing to unpack .../088-libcifpp5_5.0.7.1-3build1_s390x.deb ... 399s Unpacking libcifpp5:s390x (5.0.7.1-3build1) ... 399s Selecting previously unselected package dssp. 399s Preparing to unpack .../089-dssp_4.2.2-2_s390x.deb ... 399s Unpacking dssp (4.2.2-2) ... 400s Selecting previously unselected package fonts-lmodern. 400s Preparing to unpack .../090-fonts-lmodern_2.005-1_all.deb ... 400s Unpacking fonts-lmodern (2.005-1) ... 400s Selecting previously unselected package fonts-lyx. 400s Preparing to unpack .../091-fonts-lyx_2.4.1-2_all.deb ... 400s Unpacking fonts-lyx (2.4.1-2) ... 400s Selecting previously unselected package libgs-common. 400s Preparing to unpack .../092-libgs-common_10.03.1~dfsg1-0ubuntu2_all.deb ... 400s Unpacking libgs-common (10.03.1~dfsg1-0ubuntu2) ... 400s Selecting previously unselected package libgs10-common. 400s Preparing to unpack .../093-libgs10-common_10.03.1~dfsg1-0ubuntu2_all.deb ... 400s Unpacking libgs10-common (10.03.1~dfsg1-0ubuntu2) ... 400s Selecting previously unselected package libavahi-common-data:s390x. 400s Preparing to unpack .../094-libavahi-common-data_0.8-13ubuntu6_s390x.deb ... 400s Unpacking libavahi-common-data:s390x (0.8-13ubuntu6) ... 400s Selecting previously unselected package libavahi-common3:s390x. 400s Preparing to unpack .../095-libavahi-common3_0.8-13ubuntu6_s390x.deb ... 400s Unpacking libavahi-common3:s390x (0.8-13ubuntu6) ... 400s Selecting previously unselected package libavahi-client3:s390x. 400s Preparing to unpack .../096-libavahi-client3_0.8-13ubuntu6_s390x.deb ... 400s Unpacking libavahi-client3:s390x (0.8-13ubuntu6) ... 400s Selecting previously unselected package libcups2t64:s390x. 400s Preparing to unpack .../097-libcups2t64_2.4.10-1ubuntu2_s390x.deb ... 400s Unpacking libcups2t64:s390x (2.4.10-1ubuntu2) ... 400s Selecting previously unselected package libidn12:s390x. 400s Preparing to unpack .../098-libidn12_1.42-2_s390x.deb ... 400s Unpacking libidn12:s390x (1.42-2) ... 400s Selecting previously unselected package libijs-0.35:s390x. 400s Preparing to unpack .../099-libijs-0.35_0.35-15.1build1_s390x.deb ... 400s Unpacking libijs-0.35:s390x (0.35-15.1build1) ... 400s Selecting previously unselected package libjbig2dec0:s390x. 400s Preparing to unpack .../100-libjbig2dec0_0.20-1build3_s390x.deb ... 400s Unpacking libjbig2dec0:s390x (0.20-1build3) ... 400s Selecting previously unselected package libpaper1:s390x. 400s Preparing to unpack .../101-libpaper1_1.1.29build1_s390x.deb ... 400s Unpacking libpaper1:s390x (1.1.29build1) ... 400s Selecting previously unselected package libice6:s390x. 400s Preparing to unpack .../102-libice6_2%3a1.0.10-1build3_s390x.deb ... 400s Unpacking libice6:s390x (2:1.0.10-1build3) ... 400s Selecting previously unselected package libsm6:s390x. 400s Preparing to unpack .../103-libsm6_2%3a1.2.3-1build3_s390x.deb ... 400s Unpacking libsm6:s390x (2:1.2.3-1build3) ... 400s Selecting previously unselected package libxt6t64:s390x. 400s Preparing to unpack .../104-libxt6t64_1%3a1.2.1-1.2build1_s390x.deb ... 400s Unpacking libxt6t64:s390x (1:1.2.1-1.2build1) ... 400s Selecting previously unselected package libgs10:s390x. 400s Preparing to unpack .../105-libgs10_10.03.1~dfsg1-0ubuntu2_s390x.deb ... 400s Unpacking libgs10:s390x (10.03.1~dfsg1-0ubuntu2) ... 400s Selecting previously unselected package ghostscript. 400s Preparing to unpack .../106-ghostscript_10.03.1~dfsg1-0ubuntu2_s390x.deb ... 400s Unpacking ghostscript (10.03.1~dfsg1-0ubuntu2) ... 400s Selecting previously unselected package libnetpbm11t64:s390x. 400s Preparing to unpack .../107-libnetpbm11t64_2%3a11.07.00-2_s390x.deb ... 400s Unpacking libnetpbm11t64:s390x (2:11.07.00-2) ... 400s Selecting previously unselected package netpbm. 400s Preparing to unpack .../108-netpbm_2%3a11.07.00-2_s390x.deb ... 400s Unpacking netpbm (2:11.07.00-2) ... 400s Selecting previously unselected package tex-common. 400s Preparing to unpack .../109-tex-common_6.18_all.deb ... 400s Unpacking tex-common (6.18) ... 400s Selecting previously unselected package libpaper-utils. 400s Preparing to unpack .../110-libpaper-utils_1.1.29build1_s390x.deb ... 400s Unpacking libpaper-utils (1.1.29build1) ... 400s Selecting previously unselected package libkpathsea6:s390x. 400s Preparing to unpack .../111-libkpathsea6_2024.20240313.70630+ds-4_s390x.deb ... 400s Unpacking libkpathsea6:s390x (2024.20240313.70630+ds-4) ... 400s Selecting previously unselected package libptexenc1:s390x. 400s Preparing to unpack .../112-libptexenc1_2024.20240313.70630+ds-4_s390x.deb ... 400s Unpacking libptexenc1:s390x (2024.20240313.70630+ds-4) ... 400s Selecting previously unselected package libsynctex2:s390x. 400s Preparing to unpack .../113-libsynctex2_2024.20240313.70630+ds-4_s390x.deb ... 400s Unpacking libsynctex2:s390x (2024.20240313.70630+ds-4) ... 400s Selecting previously unselected package libtexlua53-5:s390x. 400s Preparing to unpack .../114-libtexlua53-5_2024.20240313.70630+ds-4_s390x.deb ... 400s Unpacking libtexlua53-5:s390x (2024.20240313.70630+ds-4) ... 400s Selecting previously unselected package t1utils. 400s Preparing to unpack .../115-t1utils_1.41-4build3_s390x.deb ... 400s Unpacking t1utils (1.41-4build3) ... 400s Selecting previously unselected package libpixman-1-0:s390x. 400s Preparing to unpack .../116-libpixman-1-0_0.42.2-1build1_s390x.deb ... 400s Unpacking libpixman-1-0:s390x (0.42.2-1build1) ... 400s Selecting previously unselected package libxcb-render0:s390x. 400s Preparing to unpack .../117-libxcb-render0_1.17.0-2_s390x.deb ... 400s Unpacking libxcb-render0:s390x (1.17.0-2) ... 400s Selecting previously unselected package libxcb-shm0:s390x. 400s Preparing to unpack .../118-libxcb-shm0_1.17.0-2_s390x.deb ... 400s Unpacking libxcb-shm0:s390x (1.17.0-2) ... 400s Selecting previously unselected package libcairo2:s390x. 400s Preparing to unpack .../119-libcairo2_1.18.2-2_s390x.deb ... 400s Unpacking libcairo2:s390x (1.18.2-2) ... 400s Selecting previously unselected package libgraphite2-3:s390x. 400s Preparing to unpack .../120-libgraphite2-3_1.3.14-2ubuntu1_s390x.deb ... 400s Unpacking libgraphite2-3:s390x (1.3.14-2ubuntu1) ... 400s Selecting previously unselected package libharfbuzz0b:s390x. 400s Preparing to unpack .../121-libharfbuzz0b_9.0.0-1_s390x.deb ... 400s Unpacking libharfbuzz0b:s390x (9.0.0-1) ... 400s Selecting previously unselected package libmpfi0:s390x. 400s Preparing to unpack .../122-libmpfi0_1.5.4+ds-3_s390x.deb ... 400s Unpacking libmpfi0:s390x (1.5.4+ds-3) ... 400s Selecting previously unselected package libpotrace0:s390x. 400s Preparing to unpack .../123-libpotrace0_1.16-2build1_s390x.deb ... 400s Unpacking libpotrace0:s390x (1.16-2build1) ... 400s Selecting previously unselected package libteckit0:s390x. 400s Preparing to unpack .../124-libteckit0_2.5.12+ds1-1_s390x.deb ... 400s Unpacking libteckit0:s390x (2.5.12+ds1-1) ... 400s Selecting previously unselected package libxmu6:s390x. 400s Preparing to unpack .../125-libxmu6_2%3a1.1.3-3build2_s390x.deb ... 400s Unpacking libxmu6:s390x (2:1.1.3-3build2) ... 400s Selecting previously unselected package libxpm4:s390x. 400s Preparing to unpack .../126-libxpm4_1%3a3.5.17-1build2_s390x.deb ... 400s Unpacking libxpm4:s390x (1:3.5.17-1build2) ... 400s Selecting previously unselected package libxaw7:s390x. 400s Preparing to unpack .../127-libxaw7_2%3a1.0.14-1build2_s390x.deb ... 400s Unpacking libxaw7:s390x (2:1.0.14-1build2) ... 400s Selecting previously unselected package libxi6:s390x. 400s Preparing to unpack .../128-libxi6_2%3a1.8.2-1_s390x.deb ... 400s Unpacking libxi6:s390x (2:1.8.2-1) ... 400s Selecting previously unselected package libzzip-0-13t64:s390x. 400s Preparing to unpack .../129-libzzip-0-13t64_0.13.72+dfsg.1-1.2build1_s390x.deb ... 400s Unpacking libzzip-0-13t64:s390x (0.13.72+dfsg.1-1.2build1) ... 400s Selecting previously unselected package texlive-binaries. 400s Preparing to unpack .../130-texlive-binaries_2024.20240313.70630+ds-4_s390x.deb ... 400s Unpacking texlive-binaries (2024.20240313.70630+ds-4) ... 400s Selecting previously unselected package xdg-utils. 400s Preparing to unpack .../131-xdg-utils_1.2.1-0ubuntu1_all.deb ... 400s Unpacking xdg-utils (1.2.1-0ubuntu1) ... 400s Selecting previously unselected package texlive-base. 400s Preparing to unpack .../132-texlive-base_2024.20240706-1_all.deb ... 400s Unpacking texlive-base (2024.20240706-1) ... 402s Selecting previously unselected package hicolor-icon-theme. 402s Preparing to unpack .../133-hicolor-icon-theme_0.18-1_all.deb ... 402s Unpacking hicolor-icon-theme (0.18-1) ... 402s Selecting previously unselected package imagemagick-6.q16. 402s Preparing to unpack .../134-imagemagick-6.q16_8%3a6.9.13.12+dfsg1-1build1_s390x.deb ... 402s Unpacking imagemagick-6.q16 (8:6.9.13.12+dfsg1-1build1) ... 402s Selecting previously unselected package imagemagick. 402s Preparing to unpack .../135-imagemagick_8%3a6.9.13.12+dfsg1-1build1_s390x.deb ... 402s Unpacking imagemagick (8:6.9.13.12+dfsg1-1build1) ... 402s Selecting previously unselected package hevea. 402s Preparing to unpack .../136-hevea_2.36-2_s390x.deb ... 402s Unpacking hevea (2.36-2) ... 402s Selecting previously unselected package libapache-pom-java. 402s Preparing to unpack .../137-libapache-pom-java_29-2_all.deb ... 402s Unpacking libapache-pom-java (29-2) ... 402s Selecting previously unselected package libblas3:s390x. 402s Preparing to unpack .../138-libblas3_3.12.0-3build2_s390x.deb ... 402s Unpacking libblas3:s390x (3.12.0-3build2) ... 402s Selecting previously unselected package libcommons-parent-java. 402s Preparing to unpack .../139-libcommons-parent-java_56-1_all.deb ... 402s Unpacking libcommons-parent-java (56-1) ... 402s Selecting previously unselected package libcommons-logging-java. 402s Preparing to unpack .../140-libcommons-logging-java_1.3.0-1ubuntu1_all.deb ... 402s Unpacking libcommons-logging-java (1.3.0-1ubuntu1) ... 402s Selecting previously unselected package libexpat1-dev:s390x. 402s Preparing to unpack .../141-libexpat1-dev_2.6.2-2_s390x.deb ... 402s Unpacking libexpat1-dev:s390x (2.6.2-2) ... 402s Selecting previously unselected package libgfortran5:s390x. 402s Preparing to unpack .../142-libgfortran5_14.2.0-7ubuntu1_s390x.deb ... 402s Unpacking libgfortran5:s390x (14.2.0-7ubuntu1) ... 402s Selecting previously unselected package libimagequant0:s390x. 402s Preparing to unpack .../143-libimagequant0_2.18.0-1build1_s390x.deb ... 402s Unpacking libimagequant0:s390x (2.18.0-1build1) ... 402s Selecting previously unselected package libjs-jquery. 402s Preparing to unpack .../144-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 402s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 402s Selecting previously unselected package libjs-jquery-ui. 402s Preparing to unpack .../145-libjs-jquery-ui_1.13.2+dfsg-1_all.deb ... 402s Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ... 402s Selecting previously unselected package libjs-underscore. 402s Preparing to unpack .../146-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 402s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 402s Selecting previously unselected package libjs-sphinxdoc. 402s Preparing to unpack .../147-libjs-sphinxdoc_7.4.7-3_all.deb ... 402s Unpacking libjs-sphinxdoc (7.4.7-3) ... 402s Selecting previously unselected package liblapack3:s390x. 402s Preparing to unpack .../148-liblapack3_3.12.0-3build2_s390x.deb ... 402s Unpacking liblapack3:s390x (3.12.0-3build2) ... 402s Selecting previously unselected package liblbfgsb0:s390x. 402s Preparing to unpack .../149-liblbfgsb0_3.0+dfsg.4-1build1_s390x.deb ... 402s Unpacking liblbfgsb0:s390x (3.0+dfsg.4-1build1) ... 402s Selecting previously unselected package libmbedcrypto7t64:s390x. 402s Preparing to unpack .../150-libmbedcrypto7t64_2.28.8-1_s390x.deb ... 402s Unpacking libmbedcrypto7t64:s390x (2.28.8-1) ... 402s Selecting previously unselected package libmbedx509-1t64:s390x. 402s Preparing to unpack .../151-libmbedx509-1t64_2.28.8-1_s390x.deb ... 402s Unpacking libmbedx509-1t64:s390x (2.28.8-1) ... 402s Selecting previously unselected package libmbedtls14t64:s390x. 402s Preparing to unpack .../152-libmbedtls14t64_2.28.8-1_s390x.deb ... 402s Unpacking libmbedtls14t64:s390x (2.28.8-1) ... 402s Selecting previously unselected package mysql-common. 402s Preparing to unpack .../153-mysql-common_5.8+1.1.1_all.deb ... 402s Unpacking mysql-common (5.8+1.1.1) ... 402s Selecting previously unselected package libmysqlclient21:s390x. 402s Preparing to unpack .../154-libmysqlclient21_8.0.39-1_s390x.deb ... 402s Unpacking libmysqlclient21:s390x (8.0.39-1) ... 402s Selecting previously unselected package zlib1g-dev:s390x. 402s Preparing to unpack .../155-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1ubuntu1_s390x.deb ... 402s Unpacking zlib1g-dev:s390x (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 402s Selecting previously unselected package libpython3.12-dev:s390x. 402s Preparing to unpack .../156-libpython3.12-dev_3.12.7-1_s390x.deb ... 402s Unpacking libpython3.12-dev:s390x (3.12.7-1) ... 402s Selecting previously unselected package libpython3-dev:s390x. 402s Preparing to unpack .../157-libpython3-dev_3.12.6-0ubuntu1_s390x.deb ... 402s Unpacking libpython3-dev:s390x (3.12.6-0ubuntu1) ... 402s Selecting previously unselected package libpython3-all-dev:s390x. 402s Preparing to unpack .../158-libpython3-all-dev_3.12.6-0ubuntu1_s390x.deb ... 402s Unpacking libpython3-all-dev:s390x (3.12.6-0ubuntu1) ... 402s Selecting previously unselected package libqhull-r8.0:s390x. 402s Preparing to unpack .../159-libqhull-r8.0_2020.2-6build1_s390x.deb ... 402s Unpacking libqhull-r8.0:s390x (2020.2-6build1) ... 402s Selecting previously unselected package libraqm0:s390x. 402s Preparing to unpack .../160-libraqm0_0.10.1-1build1_s390x.deb ... 402s Unpacking libraqm0:s390x (0.10.1-1build1) ... 402s Selecting previously unselected package libxslt1.1:s390x. 402s Preparing to unpack .../161-libxslt1.1_1.1.39-0exp1ubuntu1_s390x.deb ... 402s Unpacking libxslt1.1:s390x (1.1.39-0exp1ubuntu1) ... 402s Selecting previously unselected package mafft. 402s Preparing to unpack .../162-mafft_7.505-1_s390x.deb ... 402s Unpacking mafft (7.505-1) ... 402s Selecting previously unselected package ncbi-data. 402s Preparing to unpack .../163-ncbi-data_6.1.20170106+dfsg2-3_all.deb ... 402s Unpacking ncbi-data (6.1.20170106+dfsg2-3) ... 402s Selecting previously unselected package ncbi-blast+. 402s Preparing to unpack .../164-ncbi-blast+_2.16.0+ds-6_s390x.deb ... 402s Unpacking ncbi-blast+ (2.16.0+ds-6) ... 403s Selecting previously unselected package phylip. 403s Preparing to unpack .../165-phylip_1%3a3.697+dfsg-4build1_s390x.deb ... 403s Unpacking phylip (1:3.697+dfsg-4build1) ... 403s Selecting previously unselected package prank. 403s Preparing to unpack .../166-prank_0.0.170427+dfsg-3_s390x.deb ... 403s Unpacking prank (0.0.170427+dfsg-3) ... 403s Selecting previously unselected package preview-latex-style. 403s Preparing to unpack .../167-preview-latex-style_13.2-1_all.deb ... 403s Unpacking preview-latex-style (13.2-1) ... 403s Selecting previously unselected package probcons. 403s Preparing to unpack .../168-probcons_1.12-14_s390x.deb ... 403s Unpacking probcons (1.12-14) ... 403s Selecting previously unselected package python-biopython-doc. 403s Preparing to unpack .../169-python-biopython-doc_1.83+dfsg1-3_all.deb ... 403s Unpacking python-biopython-doc (1.83+dfsg1-3) ... 403s Selecting previously unselected package python-matplotlib-data. 403s Preparing to unpack .../170-python-matplotlib-data_3.8.3-3_all.deb ... 403s Unpacking python-matplotlib-data (3.8.3-3) ... 403s Selecting previously unselected package python3-all. 403s Preparing to unpack .../171-python3-all_3.12.6-0ubuntu1_s390x.deb ... 403s Unpacking python3-all (3.12.6-0ubuntu1) ... 403s Selecting previously unselected package python3.12-dev. 403s Preparing to unpack .../172-python3.12-dev_3.12.7-1_s390x.deb ... 403s Unpacking python3.12-dev (3.12.7-1) ... 403s Selecting previously unselected package python3-dev. 403s Preparing to unpack .../173-python3-dev_3.12.6-0ubuntu1_s390x.deb ... 403s Unpacking python3-dev (3.12.6-0ubuntu1) ... 403s Selecting previously unselected package python3-all-dev. 403s Preparing to unpack .../174-python3-all-dev_3.12.6-0ubuntu1_s390x.deb ... 403s Unpacking python3-all-dev (3.12.6-0ubuntu1) ... 403s Selecting previously unselected package python3-appdirs. 403s Preparing to unpack .../175-python3-appdirs_1.4.4-4_all.deb ... 403s Unpacking python3-appdirs (1.4.4-4) ... 403s Selecting previously unselected package python3-numpy. 403s Preparing to unpack .../176-python3-numpy_1%3a1.26.4+ds-11build1_s390x.deb ... 403s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 403s Selecting previously unselected package python3.12-tk. 403s Preparing to unpack .../177-python3.12-tk_3.12.7-1_s390x.deb ... 403s Unpacking python3.12-tk (3.12.7-1) ... 403s Selecting previously unselected package python3-tk:s390x. 403s Preparing to unpack .../178-python3-tk_3.12.6-1ubuntu1_s390x.deb ... 403s Unpacking python3-tk:s390x (3.12.6-1ubuntu1) ... 403s Selecting previously unselected package python3-pil.imagetk:s390x. 403s Preparing to unpack .../179-python3-pil.imagetk_10.4.0-1ubuntu1_s390x.deb ... 403s Unpacking python3-pil.imagetk:s390x (10.4.0-1ubuntu1) ... 403s Selecting previously unselected package python3-pil:s390x. 403s Preparing to unpack .../180-python3-pil_10.4.0-1ubuntu1_s390x.deb ... 403s Unpacking python3-pil:s390x (10.4.0-1ubuntu1) ... 403s Selecting previously unselected package python3-cairo. 403s Preparing to unpack .../181-python3-cairo_1.26.1-2_s390x.deb ... 403s Unpacking python3-cairo (1.26.1-2) ... 403s Selecting previously unselected package python3-freetype. 403s Preparing to unpack .../182-python3-freetype_2.4.0-2_all.deb ... 403s Unpacking python3-freetype (2.4.0-2) ... 403s Selecting previously unselected package python3-rlpycairo. 403s Preparing to unpack .../183-python3-rlpycairo_0.3.0-3_all.deb ... 403s Unpacking python3-rlpycairo (0.3.0-3) ... 403s Selecting previously unselected package python3-reportlab. 403s Preparing to unpack .../184-python3-reportlab_4.2.2-1_all.deb ... 403s Unpacking python3-reportlab (4.2.2-1) ... 403s Selecting previously unselected package xml-core. 403s Preparing to unpack .../185-xml-core_0.19_all.deb ... 403s Unpacking xml-core (0.19) ... 403s Selecting previously unselected package w3c-sgml-lib. 403s Preparing to unpack .../186-w3c-sgml-lib_1.3-3_all.deb ... 403s Unpacking w3c-sgml-lib (1.3-3) ... 403s Selecting previously unselected package python3-biopython. 403s Preparing to unpack .../187-python3-biopython_1.83+dfsg1-3_s390x.deb ... 403s Unpacking python3-biopython (1.83+dfsg1-3) ... 403s Selecting previously unselected package python3-biopython-sql. 403s Preparing 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previously unselected package python3-isodate. 404s Preparing to unpack .../205-python3-isodate_0.6.1-3_all.deb ... 404s Unpacking python3-isodate (0.6.1-3) ... 404s Selecting previously unselected package python3-kiwisolver. 404s Preparing to unpack .../206-python3-kiwisolver_1.4.5-1_s390x.deb ... 404s Unpacking python3-kiwisolver (1.4.5-1) ... 404s Selecting previously unselected package python3-packaging. 404s Preparing to unpack .../207-python3-packaging_24.1-1_all.deb ... 404s Unpacking python3-packaging (24.1-1) ... 404s Selecting previously unselected package python3-matplotlib. 404s Preparing to unpack .../208-python3-matplotlib_3.8.3-3_s390x.deb ... 404s Unpacking python3-matplotlib (3.8.3-3) ... 404s Selecting previously unselected package python3-msgpack. 404s Preparing to unpack .../209-python3-msgpack_1.0.3-3build2_s390x.deb ... 404s Unpacking python3-msgpack (1.0.3-3build2) ... 404s Selecting previously unselected package python3-mmtf. 404s Preparing to unpack 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Setting up libgraphite2-3:s390x (1.3.14-2ubuntu1) ... 408s Setting up liblcms2-2:s390x (2.14-2build1) ... 408s Setting up ncbi-data (6.1.20170106+dfsg2-3) ... 408s Setting up libpixman-1-0:s390x (0.42.2-1build1) ... 408s Setting up libsharpyuv0:s390x (1.4.0-0.1) ... 408s Setting up libpaper1:s390x (1.1.29build1) ... 408s 408s Creating config file /etc/papersize with new version 408s Setting up libaom3:s390x (3.9.1-1) ... 408s Setting up mysql-common (5.8+1.1.1) ... 408s update-alternatives: using /etc/mysql/my.cnf.fallback to provide /etc/mysql/my.cnf (my.cnf) in auto mode 408s Setting up libmysqlclient21:s390x (8.0.39-1) ... 408s Setting up imagemagick-6-common (8:6.9.13.12+dfsg1-1build1) ... 408s Setting up libxpm4:s390x (1:3.5.17-1build2) ... 408s Setting up hicolor-icon-theme (0.18-1) ... 408s Setting up libxi6:s390x (2:1.8.2-1) ... 408s Setting up probcons (1.12-14) ... 408s Setting up libmbedcrypto7t64:s390x (2.28.8-1) ... 408s Setting up libxrender1:s390x (1:0.9.10-1.1build1) ... 408s Setting up python3-lz4 (4.0.2+dfsg-1build4) ... 409s Setting up libxcb-render0:s390x (1.17.0-2) ... 409s Setting up mafft (7.505-1) ... 409s Setting up libarchive-zip-perl (1.68-1) ... 409s Setting up bwa (0.7.17-7) ... 409s Setting up fonts-lyx (2.4.1-2) ... 409s Setting up libijs-0.35:s390x (0.35-15.1build1) ... 409s Setting up libdebhelper-perl (13.20ubuntu1) ... 409s Setting up libgs-common (10.03.1~dfsg1-0ubuntu2) ... 409s Setting up libfontbox-java (1:1.8.16-5) ... 409s Setting up phylip (1:3.697+dfsg-4build1) ... 409s Setting up x11-common (1:7.7+23ubuntu3) ... 409s Setting up libdeflate0:s390x (1.21-1) ... 409s Setting up m4 (1.4.19-4build1) ... 409s Setting up libqhull-r8.0:s390x (2020.2-6build1) ... 409s Setting up python3-all (3.12.6-0ubuntu1) ... 409s Setting up libxcb-shm0:s390x (1.17.0-2) ... 409s Setting up libpaper-utils (1.1.29build1) ... 409s Setting up libgomp1:s390x (14.2.0-7ubuntu1) ... 409s Setting up python3-networkx (3.2.1-4ubuntu1) ... 410s Setting up libjbig0:s390x (2.1-6.1ubuntu2) ... 410s Setting up libnetpbm11t64:s390x (2:11.07.00-2) ... 410s Setting up python3-tz (2024.1-2) ... 410s Setting up t-coffee (13.45.0.4846264+really13.41.0.28bdc39+dfsg-1) ... 410s Setting up poppler-data (0.4.12-1) ... 410s Setting up unicode-data (15.1.0-1) ... 410s Setting up python3-mysqldb (1.4.6-2build3) ... 410s Setting up python3-six (1.16.0-7) ... 410s Setting up tex-common (6.18) ... 410s update-language: texlive-base not installed and configured, doing nothing! 411s Setting up python3-isodate (0.6.1-3) ... 411s Setting up python3-decorator (5.1.1-5) ... 411s Setting up libfontenc1:s390x (1:1.1.8-1build1) ... 411s Setting up autotools-dev (20220109.1) ... 411s Setting up libblas3:s390x (3.12.0-3build2) ... 411s 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 411s Setting up python3-packaging (24.1-1) ... 411s Setting up libexpat1-dev:s390x (2.6.2-2) ... 411s Setting up libzzip-0-13t64:s390x (0.13.72+dfsg.1-1.2build1) ... 411s Setting up libfreetype6:s390x (2.13.3+dfsg-1) ... 411s Setting up libjbig2dec0:s390x (0.20-1build3) ... 411s Setting up libteckit0:s390x (2.5.12+ds1-1) ... 411s Setting up python3-brotli (1.1.0-2build2) ... 411s Setting up libapache-pom-java (29-2) ... 411s Setting up libavahi-common-data:s390x (0.8-13ubuntu6) ... 411s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 411s Setting up t1utils (1.41-4build3) ... 411s Setting up python3-cycler (0.12.1-1) ... 411s Setting up libtexlua53-5:s390x (2024.20240313.70630+ds-4) ... 411s Setting up libimagequant0:s390x (2.18.0-1build1) ... 411s Setting up fonts-dejavu-mono (2.37-8) ... 411s Setting up python3-kiwisolver (1.4.5-1) ... 411s Setting up libmpc3:s390x (1.3.1-1build2) ... 411s Setting up libidn12:s390x (1.42-2) ... 411s Setting up libtcl8.6:s390x (8.6.14+dfsg-1build1) ... 411s Setting up autopoint (0.22.5-2) ... 411s Setting up libmpfi0:s390x (1.5.4+ds-3) ... 411s Setting up fonts-dejavu-core (2.37-8) ... 411s Setting up wise-data (2.4.1-25) ... 411s Setting up libjpeg-turbo8:s390x (2.1.5-2ubuntu2) ... 411s Setting up libltdl7:s390x (2.4.7-7build1) ... 411s Setting up libfftw3-double3:s390x (3.3.10-1ubuntu4) ... 411s Setting up libcifpp-data (5.0.7.1-3build1) ... 411s Setting up libkpathsea6:s390x (2024.20240313.70630+ds-4) ... 411s Setting up libgfortran5:s390x (14.2.0-7ubuntu1) ... 411s Setting up autoconf (2.72-3) ... 411s Setting up libwebp7:s390x (1.4.0-0.1) ... 411s Setting up libubsan1:s390x (14.2.0-7ubuntu1) ... 411s Setting up zlib1g-dev:s390x (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 411s Setting up dwz (0.15-1build6) ... 411s Setting up liblqr-1-0:s390x (0.4.2-2.1build2) ... 411s Setting up python3-rdflib (7.0.0-1) ... 411s Setting up python-biopython-doc (1.83+dfsg1-3) ... 411s Setting up libasan8:s390x (14.2.0-7ubuntu1) ... 411s Setting up libxslt1.1:s390x (1.1.39-0exp1ubuntu1) ... 411s Setting up debugedit (1:5.0-6) ... 411s Setting up fonts-lmodern (2.005-1) ... 411s Setting up libopenjp2-7:s390x (2.5.0-2ubuntu1) ... 411s Setting up libharfbuzz0b:s390x (9.0.0-1) ... 411s Setting up python3-dateutil (2.9.0-2) ... 412s Setting up fasttree (2.1.11-2) ... 412s Setting up sgml-base (1.31) ... 412s Setting up python3-msgpack (1.0.3-3build2) ... 412s Setting up libxss1:s390x (1:1.2.3-1build3) ... 412s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 412s Setting up python3-mpmath (1.3.0-1) ... 412s Setting up libisl23:s390x (0.27-1) ... 412s Setting up libde265-0:s390x (1.0.15-1build4) ... 412s Setting up python-matplotlib-data (3.8.3-3) ... 412s Setting up libwebpmux3:s390x (1.4.0-0.1) ... 412s Setting up python3-appdirs (1.4.4-4) ... 412s Setting up dialign (2.2.1-13) ... 412s Setting up xdg-utils (1.2.1-0ubuntu1) ... 412s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode 412s Setting up libcc1-0:s390x (14.2.0-7ubuntu1) ... 412s Setting up libitm1:s390x (14.2.0-7ubuntu1) ... 412s Setting up libsynctex2:s390x (2024.20240313.70630+ds-4) ... 412s Setting up prank (0.0.170427+dfsg-3) ... 412s Setting up libargtable2-0 (13-2) ... 412s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 412s Setting up libpotrace0:s390x (1.16-2build1) ... 412s Setting up libjpeg8:s390x (8c-2ubuntu11) ... 412s Setting up automake (1:1.16.5-1.3ubuntu1) ... 412s update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode 412s Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... 412s Setting up python3-sympy (1.13.1-1) ... 419s Setting up libice6:s390x (2:1.0.10-1build3) ... 419s Setting up flex (2.6.4-8.2build1) ... 419s Setting up liblapack3:s390x (3.12.0-3build2) ... 419s 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 419s Setting up gettext (0.22.5-2) ... 419s Setting up libmbedx509-1t64:s390x (2.28.8-1) ... 419s Setting up libpdfbox-java (1:1.8.16-5) ... 419s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 419s Setting up wise (2.4.1-25) ... 419s Setting up preview-latex-style (13.2-1) ... 419s Setting up libwebpdemux2:s390x (1.4.0-0.1) ... 419s Setting up libcommons-parent-java (56-1) ... 419s Setting up libavahi-common3:s390x (0.8-13ubuntu6) ... 419s Setting up libcommons-logging-java (1.3.0-1ubuntu1) ... 419s Setting up libpython3.12-dev:s390x (3.12.7-1) ... 419s Setting up clustalo (1.2.4-8build1) ... 419s Setting up python3-freetype (2.4.0-2) ... 419s Setting up xfonts-utils (1:7.7+7) ... 419s Setting up intltool-debian (0.35.0+20060710.6) ... 419s Setting up python3-fs (2.4.16-4) ... 419s Setting up libcifpp5:s390x (5.0.7.1-3build1) ... 419s Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... 419s Setting up libptexenc1:s390x (2024.20240313.70630+ds-4) ... 419s Setting up libraqm0:s390x (0.10.1-1build1) ... 419s Setting up python3.12-dev (3.12.7-1) ... 419s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 421s Setting up libjs-sphinxdoc (7.4.7-3) ... 421s Setting up cpp-14-s390x-linux-gnu (14.2.0-7ubuntu1) ... 421s Setting up libraw23t64:s390x (0.21.2-2.1build1) ... 421s Setting up cpp-14 (14.2.0-7ubuntu1) ... 422s Setting up dh-strip-nondeterminism (1.14.0-1) ... 422s Setting up libmbedtls14t64:s390x (2.28.8-1) ... 422s Setting up python3-lxml:s390x (5.3.0-1) ... 422s Setting up libtiff6:s390x (4.5.1+git230720-4ubuntu4) ... 422s Setting up xml-core (0.19) ... 422s Setting up python3-contourpy (1.2.1-1) ... 422s Setting up libfontconfig1:s390x (2.15.0-1.1ubuntu2) ... 422s Setting up libgcc-14-dev:s390x (14.2.0-7ubuntu1) ... 422s Setting up libstdc++-14-dev:s390x (14.2.0-7ubuntu1) ... 422s Setting up libsm6:s390x (2:1.2.3-1build3) ... 422s Setting up libavahi-client3:s390x (0.8-13ubuntu6) ... 422s Setting up liblbfgsb0:s390x (3.0+dfsg.4-1build1) ... 422s Setting up libxft2:s390x (2.3.6-1build1) ... 422s Setting up python3-scipy (1.13.1-3) ... 426s Setting up libpython3-dev:s390x (3.12.6-0ubuntu1) ... 426s Setting up cpp-s390x-linux-gnu (4:14.1.0-2ubuntu1) ... 426s Setting up po-debconf (1.0.21+nmu1) ... 426s Setting up libtk8.6:s390x (8.6.14-1build1) ... 426s Setting up python3.12-tk (3.12.7-1) ... 426s Setting up python3-mmtf (1.1.3-1) ... 426s Setting up fonts-urw-base35 (20200910-8) ... 426s Setting up dssp (4.2.2-2) ... 426s Setting up libcairo2:s390x (1.18.2-2) ... 426s Setting up ncbi-blast+ (2.16.0+ds-6) ... 426s Setting up python3-pil:s390x (10.4.0-1ubuntu1) ... 426s Setting up gcc-14-s390x-linux-gnu (14.2.0-7ubuntu1) ... 426s Setting up gcc-s390x-linux-gnu (4:14.1.0-2ubuntu1) ... 426s Setting up libpython3-all-dev:s390x (3.12.6-0ubuntu1) ... 426s Setting up python3-dev (3.12.6-0ubuntu1) ... 426s Setting up libxt6t64:s390x (1:1.2.1-1.2build1) ... 426s Setting up g++-14-s390x-linux-gnu (14.2.0-7ubuntu1) ... 426s Setting up netpbm (2:11.07.00-2) ... 426s Setting up cpp (4:14.1.0-2ubuntu1) ... 426s Setting up libcups2t64:s390x (2.4.10-1ubuntu2) ... 426s Setting up python3-all-dev (3.12.6-0ubuntu1) ... 426s Setting up libgs10-common (10.03.1~dfsg1-0ubuntu2) ... 426s Setting up tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 426s Setting up libxmu6:s390x (2:1.1.3-3build2) ... 426s Setting up python3-cairo (1.26.1-2) ... 426s Setting up blt (2.5.3+dfsg-7build1) ... 426s Setting up python3-tk:s390x (3.12.6-1ubuntu1) ... 426s Setting up g++-s390x-linux-gnu (4:14.1.0-2ubuntu1) ... 426s Setting up libxaw7:s390x (2:1.0.14-1build2) ... 426s Setting up gcc-14 (14.2.0-7ubuntu1) ... 426s Setting up python3-pil.imagetk:s390x (10.4.0-1ubuntu1) ... 426s Setting up python3-rlpycairo (0.3.0-3) ... 426s Setting up python3-reportlab (4.2.2-1) ... 427s Setting up texlive-binaries (2024.20240313.70630+ds-4) ... 427s update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode 427s update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode 427s Setting up g++-14 (14.2.0-7ubuntu1) ... 427s Setting up texlive-base (2024.20240706-1) ... 428s tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps 428s tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg 428s tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper 428s tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex 428s Setting up libgs10:s390x (10.03.1~dfsg1-0ubuntu2) ... 428s Setting up libtool (2.4.7-7build1) ... 429s Setting up ghostscript (10.03.1~dfsg1-0ubuntu2) ... 429s Setting up gcc (4:14.1.0-2ubuntu1) ... 429s Setting up dh-autoreconf (20) ... 429s Setting up texlive-latex-base (2024.20240706-1) ... 429s Setting up texlive-latex-recommended (2024.20240706-1) ... 429s Setting up texlive-pictures (2024.20240706-1) ... 429s Setting up g++ (4:14.1.0-2ubuntu1) ... 429s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 429s Setting up texlive-fonts-recommended (2024.20240706-1) ... 429s Setting up build-essential (12.10ubuntu1) ... 429s Setting up debhelper (13.20ubuntu1) ... 429s Setting up texlive-latex-extra (2024.20240706-2) ... 429s Setting up python3-ufolib2 (0.16.0+dfsg1-1) ... 429s Setting up libheif-plugin-aomdec:s390x (1.18.1-2) ... 429s Setting up libheif-plugin-libde265:s390x (1.18.1-2) ... 429s Setting up libheif1:s390x (1.18.1-2) ... 429s Setting up libmagickcore-6.q16-7t64:s390x (8:6.9.13.12+dfsg1-1build1) ... 429s Setting up python3-fonttools (4.46.0-1build2) ... 430s Setting up libmagickwand-6.q16-7t64:s390x (8:6.9.13.12+dfsg1-1build1) ... 430s Setting up imagemagick-6.q16 (8:6.9.13.12+dfsg1-1build1) ... 430s update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare (compare) in auto mode 430s update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare-im6 (compare-im6) in auto mode 430s update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate (animate) in auto mode 430s update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate-im6 (animate-im6) in auto mode 430s update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert (convert) in auto mode 430s update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert-im6 (convert-im6) in auto mode 430s update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite (composite) in auto mode 430s update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite-im6 (composite-im6) in auto mode 430s update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure (conjure) in auto mode 430s update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure-im6 (conjure-im6) in auto mode 430s update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import (import) in auto mode 430s update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import-im6 (import-im6) in auto mode 430s update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify (identify) in auto mode 430s update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify-im6 (identify-im6) in auto mode 430s update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream (stream) in auto mode 430s update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream-im6 (stream-im6) in auto mode 430s update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display (display) in auto mode 430s update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display-im6 (display-im6) in auto mode 430s update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage (montage) in auto mode 430s update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage-im6 (montage-im6) in auto mode 430s update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify (mogrify) in auto mode 430s update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify-im6 (mogrify-im6) in auto mode 430s Setting up python3-matplotlib (3.8.3-3) ... 431s Setting up hevea (2.36-2) ... 431s Setting up imagemagick (8:6.9.13.12+dfsg1-1build1) ... 431s Processing triggers for install-info (7.1.1-1) ... 431s Processing triggers for libc-bin (2.40-1ubuntu3) ... 431s Processing triggers for man-db (2.12.1-3) ... 431s Processing triggers for sgml-base (1.31) ... 431s Setting up w3c-sgml-lib (1.3-3) ... 454s Setting up python3-biopython (1.83+dfsg1-3) ... 455s Setting up python3-biopython-sql (1.83+dfsg1-3) ... 456s Setting up autopkgtest-satdep (0) ... 456s Processing triggers for tex-common (6.18) ... 456s Running updmap-sys. This may take some time... done. 456s Running mktexlsr /var/lib/texmf ... done. 456s Building format(s) --all. 535s This may take some time... done. 540s (Reading database ... 98023 files and directories currently installed.) 540s Removing autopkgtest-satdep (0) ... 557s autopkgtest [09:59:25]: test full_suite: sh debian/tests/run-unit-test 557s autopkgtest [09:59:25]: test full_suite: [----------------------- 558s mkdir: created directory 'Bio' 558s mkdir: created directory 'Bio/Align' 558s mkdir: created directory 'Bio/Align/substitution_matrices' 558s mkdir: created directory 'Bio/Align/substitution_matrices/data/' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER22' -> 'Bio/Align/substitution_matrices/data/BENNER22' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER6' -> 'Bio/Align/substitution_matrices/data/BENNER6' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER74' -> 'Bio/Align/substitution_matrices/data/BENNER74' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLASTN' -> 'Bio/Align/substitution_matrices/data/BLASTN' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLASTP' -> 'Bio/Align/substitution_matrices/data/BLASTP' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM45' -> 'Bio/Align/substitution_matrices/data/BLOSUM45' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM50' -> 'Bio/Align/substitution_matrices/data/BLOSUM50' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM62' -> 'Bio/Align/substitution_matrices/data/BLOSUM62' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM80' -> 'Bio/Align/substitution_matrices/data/BLOSUM80' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM90' -> 'Bio/Align/substitution_matrices/data/BLOSUM90' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/DAYHOFF' -> 'Bio/Align/substitution_matrices/data/DAYHOFF' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/FENG' -> 'Bio/Align/substitution_matrices/data/FENG' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/GENETIC' -> 'Bio/Align/substitution_matrices/data/GENETIC' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/GONNET1992' -> 'Bio/Align/substitution_matrices/data/GONNET1992' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/HOXD70' -> 'Bio/Align/substitution_matrices/data/HOXD70' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/JOHNSON' -> 'Bio/Align/substitution_matrices/data/JOHNSON' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/JONES' -> 'Bio/Align/substitution_matrices/data/JONES' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/LEVIN' -> 'Bio/Align/substitution_matrices/data/LEVIN' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MCLACHLAN' -> 'Bio/Align/substitution_matrices/data/MCLACHLAN' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MDM78' -> 'Bio/Align/substitution_matrices/data/MDM78' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MEGABLAST' -> 'Bio/Align/substitution_matrices/data/MEGABLAST' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/NUC.4.4' -> 'Bio/Align/substitution_matrices/data/NUC.4.4' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM250' -> 'Bio/Align/substitution_matrices/data/PAM250' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM30' -> 'Bio/Align/substitution_matrices/data/PAM30' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM70' -> 'Bio/Align/substitution_matrices/data/PAM70' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/RAO' -> 'Bio/Align/substitution_matrices/data/RAO' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/RISLER' -> 'Bio/Align/substitution_matrices/data/RISLER' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/SCHNEIDER' -> 'Bio/Align/substitution_matrices/data/SCHNEIDER' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/STR' -> 'Bio/Align/substitution_matrices/data/STR' 558s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/TRANS' -> 'Bio/Align/substitution_matrices/data/TRANS' 558s Remove test test_Tutorial.py which is bound to fail 558s test_Ace ... ok 558s test_Affy ... ok 560s test_AlignIO ... ok 560s test_AlignIO_ClustalIO ... ok 560s test_AlignIO_EmbossIO ... ok 560s test_AlignIO_FastaIO ... ok 560s test_AlignIO_MauveIO ... ok 560s test_AlignIO_PhylipIO ... ok 560s test_AlignIO_convert ... ok 560s test_AlignInfo ... ok 560s test_Align_Alignment ... ok 561s test_Align_a2m ... ok 561s test_Align_bed ... ok 561s test_Align_bigbed ... ok 561s test_Align_bigmaf ... ok 562s test_Align_bigpsl ... ok 562s test_Align_chain ... ok 562s test_Align_clustal ... ok 567s test_Align_codonalign ... ok 567s test_Align_emboss ... ok 567s test_Align_exonerate ... ok 567s test_Align_fasta ... ok 567s test_Align_hhr ... ok 568s test_Align_maf ... ok 568s test_Align_mauve ... ok 568s test_Align_msf ... ok 568s test_Align_nexus ... ok 568s test_Align_phylip ... ok 568s test_Align_psl ... ok 568s test_Align_sam ... ok 570s test_Align_stockholm ... ok 570s test_Align_tabular ... ok 570s test_Application ... ok 570s test_BioSQL_MySQLdb_online ... skipping. internet not available 570s test_BioSQL_mysql_connector ... skipping. BioSQL test configuration file biosql.ini missing (see biosql.ini.sample) 570s test_BioSQL_mysql_connector_online ... skipping. internet not available 570s test_BioSQL_psycopg2_online ... skipping. internet not available 573s test_BioSQL_sqlite3 ... ok 573s test_BioSQL_sqlite3_online ... skipping. internet not available 573s test_Blast_Record ... ok 573s test_CAPS ... ok 573s test_Chi2 ... ok 575s test_ClustalOmega_tool ... ok 575s test_Clustalw_tool ... skipping. Install clustalw or clustalw2 if you want to use it from Biopython. 575s test_Cluster ... ok 575s test_CodonTable ... ok 575s test_ColorSpiral ... ok 575s test_Compass ... ok 576s test_Consensus ... ok 577s test_Dialign_tool ... ok 577s test_EMBL_unittest ... ok 577s test_Emboss ... skipping. $EMBOSS_ROOT='/usr/lib/emboss' which does not exist! 577s test_EmbossPrimer ... ok 581s test_Entrez ... ok 581s test_Entrez_online ... skipping. internet not available 582s test_Entrez_parser ... ok 582s test_Enzyme ... ok 582s test_ExPASy ... skipping. internet not available 582s test_Fasttree_tool ... ok 582s test_File ... ok 582s test_GenBank ... ok 584s test_GenomeDiagram ... Warn: Can't find .pfb for face 'Helvetica' 585s ok 586s test_GraphicsChromosome ... ok 586s test_GraphicsDistribution ... ok 587s test_GraphicsGeneral ... ok 587s test_HMMCasino ... ok 587s test_HMMGeneral ... ok 587s test_KEGG ... ok 587s test_KEGG_online ... skipping. internet not available 592s test_KGML_graphics ... ok 592s test_KGML_graphics_online ... skipping. internet not available 593s test_KGML_nographics ... ok 593s test_KeyWList ... ok 593s test_LogisticRegression ... ok 593s test_MafIO_index ... ok 594s test_Mafft_tool ... ok 594s test_MarkovModel ... ok 594s test_Medline ... ok 594s test_Muscle_tool ... skipping. Install MUSCLE if you want to use the Bio.Align.Applications wrapper. 595s test_NCBIXML ... ok 597s test_NCBI_BLAST_tools ... ok 597s test_NCBI_qblast ... ok 597s test_NMR ... ok 597s test_NaiveBayes ... ok 597s test_Nexus ... ok 597s test_PAML_baseml ... ok 598s test_PAML_codeml ... ok 598s test_PAML_yn00 ... ok 598s test_PDBList ... skipping. internet not available 600s test_PDB_CEAligner ... ok 602s test_PDB_DSSP ... ok 602s test_PDB_Dice ... ok 602s test_PDB_Disordered ... ok 602s test_PDB_Exposure ... ok 602s test_PDB_FragmentMapper ... ok 603s test_PDB_KDTree ... ok 603s test_PDB_MMCIF2Dict ... ok 604s test_PDB_MMCIFIO ... ok 605s test_PDB_MMCIFParser ... ok 605s test_PDB_NACCESS ... ok 605s test_PDB_PDBIO ... ok 605s test_PDB_PDBParser ... ok 605s 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 605s test_PDB_Polypeptide ... ok 605s test_PDB_QCPSuperimposer ... ok 608s test_PDB_SASA ... ok 609s test_PDB_SMCRA ... ok 609s test_PDB_Selection ... ok 609s test_PDB_StructureAlignment ... ok 609s test_PDB_Superimposer ... ok 618s test_PDB_internal_coords ... ok 618s test_PDB_parse_pdb_header ... ok 618s test_PDB_vectors ... ok 618s test_PQR ... ok 619s test_Pathway ... ok 619s test_Phd ... ok 620s test_Phylo ... ok 620s test_PhyloXML ... ok 620s test_Phylo_CDAO ... ok 621s test_Phylo_NeXML ... ok 624s test_Phylo_matplotlib ... ok 624s test_Phylo_networkx ... ok 625s test_PopGen_GenePop_nodepend ... ok 626s test_Prank_tool ... ok 627s test_Probcons_tool ... ok 627s test_ProtParam ... ok 628s test_RCSBFormats ... ok 628s test_Restriction ... ok 629s test_SCOP_Astral ... ok 629s test_SCOP_Cla ... ok 630s test_SCOP_Des ... ok 630s test_SCOP_Dom ... ok 631s test_SCOP_Hie ... ok 631s test_SCOP_Raf ... ok 631s test_SCOP_Residues ... ok 632s test_SCOP_Scop ... ok 632s test_SCOP_online ... skipping. internet not available 633s test_SVDSuperimposer ... ok 633s test_SearchIO_blast_tab ... ok 634s test_SearchIO_blast_tab_index ... ok 634s test_SearchIO_blast_xml ... ok 636s test_SearchIO_blast_xml_index ... ok 636s test_SearchIO_blat_psl ... ok 637s test_SearchIO_blat_psl_index ... ok 637s test_SearchIO_exonerate ... ok 638s test_SearchIO_exonerate_text_index ... ok 638s test_SearchIO_exonerate_vulgar_index ... ok 639s test_SearchIO_fasta_m10 ... ok 639s test_SearchIO_fasta_m10_index ... ok 640s test_SearchIO_hhsuite2_text ... ok 640s test_SearchIO_hmmer2_text ... ok 641s test_SearchIO_hmmer2_text_index ... ok 641s test_SearchIO_hmmer3_domtab ... ok 641s test_SearchIO_hmmer3_domtab_index ... ok 642s test_SearchIO_hmmer3_tab ... ok 642s test_SearchIO_hmmer3_tab_index ... ok 642s test_SearchIO_hmmer3_text ... ok 643s test_SearchIO_hmmer3_text_index ... ok 643s test_SearchIO_interproscan_xml ... ok 644s test_SearchIO_model ... ok 644s test_SearchIO_write ... ok 645s test_SeqFeature ... /usr/lib/python3/dist-packages/Bio/SeqFeature.py:1040: BiopythonParserWarning: Attempting to fix invalid location '3..2' as it looks like incorrect origin wrapping. Please fix input file, this could have unintended behavior. 645s warnings.warn( 645s ok 658s test_SeqIO ... ok 659s test_SeqIO_AbiIO ... ok 659s test_SeqIO_FastaIO ... ok 660s test_SeqIO_Gck ... ok 660s test_SeqIO_Insdc ... ok 661s test_SeqIO_NibIO ... ok 663s test_SeqIO_PdbIO ... ok 663s test_SeqIO_QualityIO ... ok 664s test_SeqIO_SeqXML ... ok 664s test_SeqIO_SnapGene ... ok 665s test_SeqIO_TwoBitIO ... ok 666s test_SeqIO_Xdna ... ok 666s test_SeqIO_features ... /usr/lib/python3/dist-packages/Bio/SeqIO/InsdcIO.py:549: BiopythonWarning: Annotation 'swissprot: locus SCX3_BUTOC, accession P01485; class: standard. created: Jul 21, 1986. sequence updated: Jul 21, 1986. annotation updated: Oct 16, 2001. xrefs: gi: gi: 69530 xrefs (non-sequence databases): HSSP P01484, InterPro IPR003614, InterPro IPR002061, InterPro IPR001219, Pfam PF00537, PRINTS PR00284, ProDom PD000908, SMART SM00505' too long for 'DBSOURCE' line 666s warnings.warn( 666s ok 678s test_SeqIO_index ... ok 678s test_SeqIO_online ... skipping. internet not available 679s test_SeqIO_write ... ok 679s test_SeqRecord ... ok 680s test_SeqUtils ... ok 681s test_Seq_objs ... ok 682s test_SffIO ... ok 682s test_SwissProt ... ok 684s test_TCoffee_tool ... ok 685s test_TogoWS ... skipping. internet not available 686s test_TreeConstruction ... ok 686s test_UniGene ... ok 687s test_UniProt_GOA ... ok 687s test_Uniprot ... ok 688s test_align ... ok 688s test_align_substitution_matrices ... ok 691s test_bgzf ... ok 691s test_cellosaurus ... ok 696s test_codonalign ... ok 697s test_geo ... ok 697s test_kNN ... ok 698s test_motifs ... ok 699s test_motifs_online ... skipping. internet not available 699s 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. 699s warnings.warn( 699s ok 700s test_pairwise2_no_C ... ok 701s test_pairwise_aligner ... ok 701s test_pairwise_alignment_map ... ok 708s test_phenotype ... ok 708s test_phenotype_fit ... ok 708s 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. 709s test_prodoc ... ok 709s test_prosite ... ok 710s test_raxml_tool ... skipping. Install RAxML (binary raxmlHPC) if you want to test the Bio.Phylo.Applications wrapper. 710s test_samtools_tool ... skipping. Install samtools and correctly set the file path to the program if you want to use it from Biopython 710s test_seq ... ok 711s test_translate ... ok 711s ---------------------------------------------------------------------- 711s Ran 211 tests in 153.486 seconds 711s 711s Skipping any tests requiring internet access 711s Python version: 3.12.7 (main, Oct 3 2024, 15:15:22) [GCC 14.2.0] 711s Operating system: posix linux 713s autopkgtest [10:02:01]: test full_suite: -----------------------] 713s autopkgtest [10:02:01]: test full_suite: - - - - - - - - - - results - - - - - - - - - - 713s full_suite PASS 713s autopkgtest [10:02:01]: @@@@@@@@@@@@@@@@@@@@ summary 713s dependencies PASS 713s full_suite PASS 727s nova [W] Using flock in prodstack6-s390x 727s flock: timeout while waiting to get lock 727s Creating nova instance adt-plucky-s390x-python-biopython-20241030-095008-juju-7f2275-prod-proposed-migration-environment-2-8d69dad0-8007-46b2-9512-23252f9ea7ee from image adt/ubuntu-plucky-s390x-server-20241029.img (UUID f65adb75-f507-40e2-9b64-4d84ffb9df90)... 727s nova [W] Using flock in prodstack6-s390x 727s flock: timeout while waiting to get lock 727s Creating nova instance adt-plucky-s390x-python-biopython-20241030-095008-juju-7f2275-prod-proposed-migration-environment-2-8d69dad0-8007-46b2-9512-23252f9ea7ee from image adt/ubuntu-plucky-s390x-server-20241029.img (UUID f65adb75-f507-40e2-9b64-4d84ffb9df90)...