0s autopkgtest [10:11:41]: starting date and time: 2024-10-30 10:11:41+0000 1s autopkgtest [10:11:41]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 1s autopkgtest [10:11:41]: host juju-7f2275-prod-proposed-migration-environment-9; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.1dwst9g3/out --timeout-copy=6000 --setup-commands 'ln -s /dev/null /etc/systemd/system/bluetooth.service; printf "http_proxy=http://squid.internal:3128\nhttps_proxy=http://squid.internal:3128\nno_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\n" >> /etc/environment' --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 -- lxd -r lxd-armhf-10.145.243.142 lxd-armhf-10.145.243.142:autopkgtest/ubuntu/plucky/armhf 56s autopkgtest [10:12:37]: testbed dpkg architecture: armhf 58s autopkgtest [10:12:39]: testbed apt version: 2.9.8 58s autopkgtest [10:12:39]: @@@@@@@@@@@@@@@@@@@@ test bed setup 67s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 67s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [212 kB] 67s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [2840 B] 67s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 67s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [28.1 kB] 67s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf Packages [36.7 kB] 67s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf Packages [233 kB] 68s Fetched 593 kB in 1s (728 kB/s) 68s Reading package lists... 87s tee: /proc/self/fd/2: Permission denied 109s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 109s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 109s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 109s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 111s Reading package lists... 111s Reading package lists... 112s Building dependency tree... 112s Reading state information... 113s Calculating upgrade... 113s The following packages were automatically installed and are no longer required: 113s libperl5.38t64 perl-modules-5.38 113s Use 'apt autoremove' to remove them. 113s The following NEW packages will be installed: 113s libperl5.40 perl-modules-5.40 python3-jaraco.text 113s The following packages will be upgraded: 113s base-files distro-info-data fwupd gcc-14-base info install-info iproute2 113s libatomic1 libdw1t64 libelf1t64 libfwupd2 libgcc-s1 libkeyutils1 113s liblocale-gettext-perl libsgutils2-1.46-2 libstdc++6 libtext-charwidth-perl 113s libtext-iconv-perl motd-news-config perl perl-base python3-pkg-resources 113s python3-setuptools sg3-utils sg3-utils-udev vim-common vim-tiny xxd 114s 28 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. 114s Need to get 19.2 MB of archives. 114s After this operation, 42.7 MB of additional disk space will be used. 114s Get:1 http://ftpmaster.internal/ubuntu plucky/main armhf motd-news-config all 13.5ubuntu2 [5274 B] 114s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf base-files armhf 13.5ubuntu2 [68.6 kB] 114s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf perl-modules-5.40 all 5.40.0-6 [3214 kB] 114s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf libperl5.40 armhf 5.40.0-6 [4140 kB] 114s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf perl armhf 5.40.0-6 [262 kB] 114s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf perl-base armhf 5.40.0-6 [1674 kB] 114s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf liblocale-gettext-perl armhf 1.07-7build1 [15.0 kB] 114s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf libtext-iconv-perl armhf 1.7-8build4 [12.8 kB] 114s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf libtext-charwidth-perl armhf 0.04-11build4 [9128 B] 114s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf libatomic1 armhf 14.2.0-7ubuntu1 [7842 B] 114s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14-base armhf 14.2.0-7ubuntu1 [51.2 kB] 114s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf libstdc++6 armhf 14.2.0-7ubuntu1 [711 kB] 114s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf libgcc-s1 armhf 14.2.0-7ubuntu1 [40.8 kB] 114s Get:14 http://ftpmaster.internal/ubuntu plucky/main armhf install-info armhf 7.1.1-1 [61.4 kB] 115s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf distro-info-data all 0.63 [6588 B] 115s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf libdw1t64 armhf 0.192-4 [243 kB] 115s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf libelf1t64 armhf 0.192-4 [50.2 kB] 115s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf iproute2 armhf 6.10.0-2ubuntu1 [1082 kB] 115s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf libkeyutils1 armhf 1.6.3-4ubuntu2 [8712 B] 115s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf vim-tiny armhf 2:9.1.0777-1ubuntu1 [693 kB] 115s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf vim-common all 2:9.1.0777-1ubuntu1 [394 kB] 115s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf xxd armhf 2:9.1.0777-1ubuntu1 [66.8 kB] 115s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf info armhf 7.1.1-1 [126 kB] 115s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf libfwupd2 armhf 1.9.26-2 [125 kB] 115s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf fwupd armhf 1.9.26-2 [4404 kB] 115s Get:26 http://ftpmaster.internal/ubuntu plucky/main armhf libsgutils2-1.46-2 armhf 1.46-3ubuntu5 [82.5 kB] 115s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jaraco.text all 4.0.0-1 [11.5 kB] 115s Get:28 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf python3-pkg-resources all 75.2.0-1 [134 kB] 115s Get:29 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf python3-setuptools all 75.2.0-1 [657 kB] 115s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf sg3-utils armhf 1.46-3ubuntu5 [816 kB] 115s Get:31 http://ftpmaster.internal/ubuntu plucky/main armhf sg3-utils-udev all 1.46-3ubuntu5 [5916 B] 115s Preconfiguring packages ... 115s Fetched 19.2 MB in 1s (15.1 MB/s) 116s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 59386 files and directories currently installed.) 116s Preparing to unpack .../motd-news-config_13.5ubuntu2_all.deb ... 116s Unpacking motd-news-config (13.5ubuntu2) over (13.3ubuntu6) ... 116s Preparing to unpack .../base-files_13.5ubuntu2_armhf.deb ... 116s Unpacking base-files (13.5ubuntu2) over (13.3ubuntu6) ... 116s Setting up base-files (13.5ubuntu2) ... 116s Installing new version of config file /etc/issue ... 116s Installing new version of config file /etc/issue.net ... 116s Installing new version of config file /etc/lsb-release ... 117s motd-news.service is a disabled or a static unit not running, not starting it. 117s (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 ... 59386 files and directories currently installed.) 117s Preparing to unpack .../perl_5.40.0-6_armhf.deb ... 117s Unpacking perl (5.40.0-6) over (5.38.2-5) ... 117s Selecting previously unselected package perl-modules-5.40. 117s Preparing to unpack .../perl-modules-5.40_5.40.0-6_all.deb ... 117s Unpacking perl-modules-5.40 (5.40.0-6) ... 117s Selecting previously unselected package libperl5.40:armhf. 117s Preparing to unpack .../libperl5.40_5.40.0-6_armhf.deb ... 117s Unpacking libperl5.40:armhf (5.40.0-6) ... 118s Preparing to unpack .../perl-base_5.40.0-6_armhf.deb ... 118s Unpacking perl-base (5.40.0-6) over (5.38.2-5) ... 118s Setting up perl-base (5.40.0-6) ... 118s (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 ... 61462 files and directories currently installed.) 118s Preparing to unpack .../liblocale-gettext-perl_1.07-7build1_armhf.deb ... 118s Unpacking liblocale-gettext-perl (1.07-7build1) over (1.07-7) ... 118s Preparing to unpack .../libtext-iconv-perl_1.7-8build4_armhf.deb ... 118s Unpacking libtext-iconv-perl:armhf (1.7-8build4) over (1.7-8build3) ... 118s Preparing to unpack .../libtext-charwidth-perl_0.04-11build4_armhf.deb ... 118s Unpacking libtext-charwidth-perl:armhf (0.04-11build4) over (0.04-11build3) ... 118s Preparing to unpack .../libatomic1_14.2.0-7ubuntu1_armhf.deb ... 118s Unpacking libatomic1:armhf (14.2.0-7ubuntu1) over (14.2.0-4ubuntu2) ... 118s Preparing to unpack .../gcc-14-base_14.2.0-7ubuntu1_armhf.deb ... 118s Unpacking gcc-14-base:armhf (14.2.0-7ubuntu1) over (14.2.0-4ubuntu2) ... 118s Setting up gcc-14-base:armhf (14.2.0-7ubuntu1) ... 118s (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 ... 61462 files and directories currently installed.) 118s Preparing to unpack .../libstdc++6_14.2.0-7ubuntu1_armhf.deb ... 118s Unpacking libstdc++6:armhf (14.2.0-7ubuntu1) over (14.2.0-4ubuntu2) ... 118s Setting up libstdc++6:armhf (14.2.0-7ubuntu1) ... 118s (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 ... 61462 files and directories currently installed.) 118s Preparing to unpack .../libgcc-s1_14.2.0-7ubuntu1_armhf.deb ... 118s Unpacking libgcc-s1:armhf (14.2.0-7ubuntu1) over (14.2.0-4ubuntu2) ... 118s Setting up libgcc-s1:armhf (14.2.0-7ubuntu1) ... 119s (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 ... 61462 files and directories currently installed.) 119s Preparing to unpack .../install-info_7.1.1-1_armhf.deb ... 119s Unpacking install-info (7.1.1-1) over (7.1-3build2) ... 119s Setting up install-info (7.1.1-1) ... 119s (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 ... 61462 files and directories currently installed.) 119s Preparing to unpack .../00-distro-info-data_0.63_all.deb ... 119s Unpacking distro-info-data (0.63) over (0.62) ... 119s Preparing to unpack .../01-libdw1t64_0.192-4_armhf.deb ... 119s Unpacking libdw1t64:armhf (0.192-4) over (0.191-2) ... 119s Preparing to unpack .../02-libelf1t64_0.192-4_armhf.deb ... 119s Unpacking libelf1t64:armhf (0.192-4) over (0.191-2) ... 119s Preparing to unpack .../03-iproute2_6.10.0-2ubuntu1_armhf.deb ... 119s Unpacking iproute2 (6.10.0-2ubuntu1) over (6.10.0-2) ... 119s Preparing to unpack .../04-libkeyutils1_1.6.3-4ubuntu2_armhf.deb ... 119s Unpacking libkeyutils1:armhf (1.6.3-4ubuntu2) over (1.6.3-3build1) ... 119s Preparing to unpack .../05-vim-tiny_2%3a9.1.0777-1ubuntu1_armhf.deb ... 119s Unpacking vim-tiny (2:9.1.0777-1ubuntu1) over (2:9.1.0496-1ubuntu6) ... 120s Preparing to unpack .../06-vim-common_2%3a9.1.0777-1ubuntu1_all.deb ... 120s Unpacking vim-common (2:9.1.0777-1ubuntu1) over (2:9.1.0496-1ubuntu6) ... 120s Preparing to unpack .../07-xxd_2%3a9.1.0777-1ubuntu1_armhf.deb ... 120s Unpacking xxd (2:9.1.0777-1ubuntu1) over (2:9.1.0496-1ubuntu6) ... 120s Preparing to unpack .../08-info_7.1.1-1_armhf.deb ... 120s Unpacking info (7.1.1-1) over (7.1-3build2) ... 120s Preparing to unpack .../09-libfwupd2_1.9.26-2_armhf.deb ... 120s Unpacking libfwupd2:armhf (1.9.26-2) over (1.9.24-1) ... 120s Preparing to unpack .../10-fwupd_1.9.26-2_armhf.deb ... 120s Unpacking fwupd (1.9.26-2) over (1.9.24-1) ... 120s Preparing to unpack .../11-libsgutils2-1.46-2_1.46-3ubuntu5_armhf.deb ... 120s Unpacking libsgutils2-1.46-2:armhf (1.46-3ubuntu5) over (1.46-3ubuntu4) ... 120s Selecting previously unselected package python3-jaraco.text. 120s Preparing to unpack .../12-python3-jaraco.text_4.0.0-1_all.deb ... 120s Unpacking python3-jaraco.text (4.0.0-1) ... 120s Preparing to unpack .../13-python3-pkg-resources_75.2.0-1_all.deb ... 121s Unpacking python3-pkg-resources (75.2.0-1) over (74.1.2-1) ... 121s Preparing to unpack .../14-python3-setuptools_75.2.0-1_all.deb ... 121s Unpacking python3-setuptools (75.2.0-1) over (74.1.2-1) ... 121s Preparing to unpack .../15-sg3-utils_1.46-3ubuntu5_armhf.deb ... 121s Unpacking sg3-utils (1.46-3ubuntu5) over (1.46-3ubuntu4) ... 121s Preparing to unpack .../16-sg3-utils-udev_1.46-3ubuntu5_all.deb ... 121s Unpacking sg3-utils-udev (1.46-3ubuntu5) over (1.46-3ubuntu4) ... 121s Setting up python3-pkg-resources (75.2.0-1) ... 122s Setting up motd-news-config (13.5ubuntu2) ... 122s Setting up libtext-iconv-perl:armhf (1.7-8build4) ... 122s Setting up libtext-charwidth-perl:armhf (0.04-11build4) ... 122s Setting up libkeyutils1:armhf (1.6.3-4ubuntu2) ... 122s Setting up distro-info-data (0.63) ... 122s Setting up libfwupd2:armhf (1.9.26-2) ... 122s Setting up libsgutils2-1.46-2:armhf (1.46-3ubuntu5) ... 122s Setting up xxd (2:9.1.0777-1ubuntu1) ... 122s Setting up libelf1t64:armhf (0.192-4) ... 122s Setting up libdw1t64:armhf (0.192-4) ... 122s Setting up vim-common (2:9.1.0777-1ubuntu1) ... 122s Installing new version of config file /etc/vim/vimrc ... 122s Setting up python3-jaraco.text (4.0.0-1) ... 122s Setting up libatomic1:armhf (14.2.0-7ubuntu1) ... 122s Setting up perl-modules-5.40 (5.40.0-6) ... 122s Setting up fwupd (1.9.26-2) ... 122s fwupd-offline-update.service is a disabled or a static unit not running, not starting it. 122s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 122s fwupd.service is a disabled or a static unit not running, not starting it. 123s Setting up info (7.1.1-1) ... 123s Setting up liblocale-gettext-perl (1.07-7build1) ... 123s Setting up sg3-utils (1.46-3ubuntu5) ... 123s Setting up python3-setuptools (75.2.0-1) ... 124s Setting up iproute2 (6.10.0-2ubuntu1) ... 124s Setting up vim-tiny (2:9.1.0777-1ubuntu1) ... 124s Setting up sg3-utils-udev (1.46-3ubuntu5) ... 124s update-initramfs: deferring update (trigger activated) 124s Setting up libperl5.40:armhf (5.40.0-6) ... 124s Setting up perl (5.40.0-6) ... 124s Processing triggers for dbus (1.14.10-4ubuntu5) ... 124s Processing triggers for install-info (7.1.1-1) ... 124s Processing triggers for initramfs-tools (0.142ubuntu34) ... 124s Processing triggers for libc-bin (2.40-1ubuntu3) ... 125s Processing triggers for man-db (2.12.1-3) ... 126s Processing triggers for plymouth-theme-ubuntu-text (24.004.60-1ubuntu10) ... 126s update-initramfs: deferring update (trigger activated) 126s Processing triggers for initramfs-tools (0.142ubuntu34) ... 126s Reading package lists... 127s Building dependency tree... 127s Reading state information... 128s The following packages will be REMOVED: 128s libperl5.38t64* perl-modules-5.38* 129s 0 upgraded, 0 newly installed, 2 to remove and 0 not upgraded. 129s After this operation, 41.6 MB disk space will be freed. 129s (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 ... 61471 files and directories currently installed.) 129s Removing libperl5.38t64:armhf (5.38.2-5) ... 129s Removing perl-modules-5.38 (5.38.2-5) ... 129s Processing triggers for man-db (2.12.1-3) ... 129s Processing triggers for libc-bin (2.40-1ubuntu3) ... 132s autopkgtest [10:13:53]: rebooting testbed after setup commands that affected boot 202s autopkgtest [10:15:03]: testbed running kernel: Linux 6.8.0-47-generic #47~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Oct 2 16:39:14 UTC 2 230s autopkgtest [10:15:31]: @@@@@@@@@@@@@@@@@@@@ apt-source python-biopython 250s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-biopython 1.83+dfsg1-3 (dsc) [3437 B] 250s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-biopython 1.83+dfsg1-3 (tar) [11.5 MB] 250s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-biopython 1.83+dfsg1-3 (diff) [21.7 kB] 250s gpgv: Signature made Wed May 22 13:59:24 2024 UTC 250s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 250s gpgv: issuer "emollier@debian.org" 250s gpgv: Can't check signature: No public key 250s dpkg-source: warning: cannot verify inline signature for ./python-biopython_1.83+dfsg1-3.dsc: no acceptable signature found 251s autopkgtest [10:15:52]: testing package python-biopython version 1.83+dfsg1-3 253s autopkgtest [10:15:54]: build not needed 257s autopkgtest [10:15:58]: test dependencies: preparing testbed 269s Reading package lists... 270s Building dependency tree... 270s Reading state information... 270s Starting pkgProblemResolver with broken count: 0 271s Starting 2 pkgProblemResolver with broken count: 0 271s Done 272s The following additional packages will be installed: 272s fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 272s libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 libfreetype6 272s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libimagequant0 libjbig0 272s libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 liblerc4 libopenjp2-7 272s libpixman-1-0 libraqm0 libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 272s libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1 python-biopython-doc 272s python3-all python3-biopython python3-biopython-sql python3-cairo 272s python3-freetype python3-numpy python3-pil python3-reportlab 272s python3-rlpycairo sgml-base w3c-sgml-lib x11-common xfonts-encodings 272s xfonts-utils xml-core 272s Suggested packages: 272s fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre liblcms2-utils 272s python3-tk bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle3 272s phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf 272s python3-rdflib python3-psycopg2 python3-scipy raxml samtools t-coffee wise 272s gcc gfortran python-numpy-doc python3-dev python3-pytest python-pil-doc 272s pdf-viewer python3-egenix-mxtexttools python-reportlab-doc rl-accel 272s rl-renderpm sgml-base-doc debhelper 272s Recommended packages: 272s ncbi-blast+ python3-olefile fonts-dejavu-extra 272s The following NEW packages will be installed: 272s autopkgtest-satdep fontconfig-config fonts-dejavu-core fonts-dejavu-mono 272s fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 272s libfreetype6 libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b 272s libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 272s liblerc4 libopenjp2-7 libpixman-1-0 libraqm0 libsharpyuv0 libtiff6 libwebp7 272s libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1 272s python-biopython-doc python3-all python3-biopython python3-biopython-sql 272s python3-cairo python3-freetype python3-numpy python3-pil python3-reportlab 272s python3-rlpycairo sgml-base w3c-sgml-lib x11-common xfonts-encodings 272s xfonts-utils xml-core 272s 0 upgraded, 49 newly installed, 0 to remove and 0 not upgraded. 272s Need to get 43.2 MB/43.2 MB of archives. 272s After this operation, 92.8 MB of additional disk space will be used. 272s Get:1 /tmp/autopkgtest.lF7bMj/1-autopkgtest-satdep.deb autopkgtest-satdep armhf 0 [740 B] 272s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf sgml-base all 1.31 [11.4 kB] 272s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf fonts-dejavu-mono all 2.37-8 [502 kB] 273s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf fonts-dejavu-core all 2.37-8 [835 kB] 273s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf libfontenc1 armhf 1:1.1.8-1build1 [11.5 kB] 273s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf libfreetype6 armhf 2.13.3+dfsg-1 [330 kB] 273s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf x11-common all 1:7.7+23ubuntu3 [21.7 kB] 273s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 273s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf xfonts-utils armhf 1:7.7+7 [90.6 kB] 273s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf fonts-urw-base35 all 20200910-8 [11.0 MB] 273s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf fontconfig-config armhf 2.15.0-1.1ubuntu2 [37.4 kB] 273s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf libblas3 armhf 3.12.0-3build2 [126 kB] 273s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf libfontconfig1 armhf 2.15.0-1.1ubuntu2 [113 kB] 273s Get:14 http://ftpmaster.internal/ubuntu plucky/main armhf libpixman-1-0 armhf 0.42.2-1build1 [193 kB] 273s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-render0 armhf 1.17.0-2 [15.3 kB] 273s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-shm0 armhf 1.17.0-2 [5774 B] 273s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf libxrender1 armhf 1:0.9.10-1.1build1 [16.0 kB] 273s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf libcairo2 armhf 1.18.2-2 [484 kB] 273s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf libdeflate0 armhf 1.21-1 [38.8 kB] 273s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf libgfortran5 armhf 14.2.0-7ubuntu1 [311 kB] 273s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf libgomp1 armhf 14.2.0-7ubuntu1 [125 kB] 273s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf libgraphite2-3 armhf 1.3.14-2ubuntu1 [64.8 kB] 273s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf libharfbuzz0b armhf 9.0.0-1 [462 kB] 273s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf libimagequant0 armhf 2.18.0-1build1 [31.1 kB] 273s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf libjpeg-turbo8 armhf 2.1.5-2ubuntu2 [125 kB] 273s Get:26 http://ftpmaster.internal/ubuntu plucky/main armhf libjpeg8 armhf 8c-2ubuntu11 [2148 B] 273s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf liblapack3 armhf 3.12.0-3build2 [2086 kB] 273s Get:28 http://ftpmaster.internal/ubuntu plucky/main armhf liblcms2-2 armhf 2.14-2build1 [132 kB] 273s Get:29 http://ftpmaster.internal/ubuntu plucky/main armhf liblerc4 armhf 4.0.0+ds-4ubuntu2 [151 kB] 273s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf libraqm0 armhf 0.10.1-1build1 [12.4 kB] 273s Get:31 http://ftpmaster.internal/ubuntu plucky/main armhf libsharpyuv0 armhf 1.4.0-0.1 [16.3 kB] 273s Get:32 http://ftpmaster.internal/ubuntu plucky/main armhf libjbig0 armhf 2.1-6.1ubuntu2 [24.9 kB] 273s Get:33 http://ftpmaster.internal/ubuntu plucky/main armhf libwebp7 armhf 1.4.0-0.1 [184 kB] 273s Get:34 http://ftpmaster.internal/ubuntu plucky/main armhf libtiff6 armhf 4.5.1+git230720-4ubuntu4 [179 kB] 273s Get:35 http://ftpmaster.internal/ubuntu plucky/main armhf libwebpdemux2 armhf 1.4.0-0.1 [11.8 kB] 273s Get:36 http://ftpmaster.internal/ubuntu plucky/main armhf libwebpmux3 armhf 1.4.0-0.1 [22.5 kB] 273s Get:37 http://ftpmaster.internal/ubuntu plucky/universe armhf python-biopython-doc all 1.83+dfsg1-3 [17.4 MB] 274s Get:38 http://ftpmaster.internal/ubuntu plucky/main armhf python3-all armhf 3.12.6-0ubuntu1 [886 B] 274s Get:39 http://ftpmaster.internal/ubuntu plucky/main armhf python3-numpy armhf 1:1.26.4+ds-11build1 [3570 kB] 274s Get:40 http://ftpmaster.internal/ubuntu plucky/main armhf libopenjp2-7 armhf 2.5.0-2ubuntu1 [170 kB] 274s Get:41 http://ftpmaster.internal/ubuntu plucky/main armhf python3-pil armhf 10.4.0-1ubuntu1 [428 kB] 274s Get:42 http://ftpmaster.internal/ubuntu plucky/main armhf python3-cairo armhf 1.26.1-2 [114 kB] 274s Get:43 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-freetype all 2.4.0-2 [81.3 kB] 274s Get:44 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-rlpycairo all 0.3.0-3 [9130 B] 274s Get:45 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-reportlab all 4.2.2-1 [1130 kB] 274s Get:46 http://ftpmaster.internal/ubuntu plucky/main armhf xml-core all 0.19 [20.3 kB] 274s Get:47 http://ftpmaster.internal/ubuntu plucky/universe armhf w3c-sgml-lib all 1.3-3 [280 kB] 274s Get:48 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-biopython armhf 1.83+dfsg1-3 [1627 kB] 274s Get:49 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-biopython-sql all 1.83+dfsg1-3 [25.7 kB] 275s Fetched 43.2 MB in 2s (21.0 MB/s) 275s Selecting previously unselected package sgml-base. 275s (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 ... 59541 files and directories currently installed.) 275s Preparing to unpack .../00-sgml-base_1.31_all.deb ... 275s Unpacking sgml-base (1.31) ... 275s Selecting previously unselected package fonts-dejavu-mono. 275s Preparing to unpack .../01-fonts-dejavu-mono_2.37-8_all.deb ... 275s Unpacking fonts-dejavu-mono (2.37-8) ... 275s Selecting previously unselected package fonts-dejavu-core. 275s Preparing to unpack .../02-fonts-dejavu-core_2.37-8_all.deb ... 275s Unpacking fonts-dejavu-core (2.37-8) ... 275s Selecting previously unselected package libfontenc1:armhf. 275s Preparing to unpack .../03-libfontenc1_1%3a1.1.8-1build1_armhf.deb ... 275s Unpacking libfontenc1:armhf (1:1.1.8-1build1) ... 275s Selecting previously unselected package libfreetype6:armhf. 275s Preparing to unpack .../04-libfreetype6_2.13.3+dfsg-1_armhf.deb ... 275s Unpacking libfreetype6:armhf (2.13.3+dfsg-1) ... 275s Selecting previously unselected package x11-common. 275s Preparing to unpack .../05-x11-common_1%3a7.7+23ubuntu3_all.deb ... 275s Unpacking x11-common (1:7.7+23ubuntu3) ... 275s Selecting previously unselected package xfonts-encodings. 275s Preparing to unpack .../06-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 275s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 275s Selecting previously unselected package xfonts-utils. 275s Preparing to unpack .../07-xfonts-utils_1%3a7.7+7_armhf.deb ... 275s Unpacking xfonts-utils (1:7.7+7) ... 275s Selecting previously unselected package fonts-urw-base35. 275s Preparing to unpack .../08-fonts-urw-base35_20200910-8_all.deb ... 275s Unpacking fonts-urw-base35 (20200910-8) ... 276s Selecting previously unselected package fontconfig-config. 276s Preparing to unpack .../09-fontconfig-config_2.15.0-1.1ubuntu2_armhf.deb ... 276s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 276s Selecting previously unselected package libblas3:armhf. 276s Preparing to unpack .../10-libblas3_3.12.0-3build2_armhf.deb ... 276s Unpacking libblas3:armhf (3.12.0-3build2) ... 276s Selecting previously unselected package libfontconfig1:armhf. 276s Preparing to unpack .../11-libfontconfig1_2.15.0-1.1ubuntu2_armhf.deb ... 276s Unpacking libfontconfig1:armhf (2.15.0-1.1ubuntu2) ... 276s Selecting previously unselected package libpixman-1-0:armhf. 276s Preparing to unpack .../12-libpixman-1-0_0.42.2-1build1_armhf.deb ... 276s Unpacking libpixman-1-0:armhf (0.42.2-1build1) ... 276s Selecting previously unselected package libxcb-render0:armhf. 276s Preparing to unpack .../13-libxcb-render0_1.17.0-2_armhf.deb ... 276s Unpacking libxcb-render0:armhf (1.17.0-2) ... 276s Selecting previously unselected package libxcb-shm0:armhf. 276s Preparing to unpack .../14-libxcb-shm0_1.17.0-2_armhf.deb ... 276s Unpacking libxcb-shm0:armhf (1.17.0-2) ... 276s Selecting previously unselected package libxrender1:armhf. 276s Preparing to unpack .../15-libxrender1_1%3a0.9.10-1.1build1_armhf.deb ... 276s Unpacking libxrender1:armhf (1:0.9.10-1.1build1) ... 276s Selecting previously unselected package libcairo2:armhf. 276s Preparing to unpack .../16-libcairo2_1.18.2-2_armhf.deb ... 276s Unpacking libcairo2:armhf (1.18.2-2) ... 276s Selecting previously unselected package libdeflate0:armhf. 276s Preparing to unpack .../17-libdeflate0_1.21-1_armhf.deb ... 276s Unpacking libdeflate0:armhf (1.21-1) ... 276s Selecting previously unselected package libgfortran5:armhf. 276s Preparing to unpack .../18-libgfortran5_14.2.0-7ubuntu1_armhf.deb ... 276s Unpacking libgfortran5:armhf (14.2.0-7ubuntu1) ... 276s Selecting previously unselected package libgomp1:armhf. 276s Preparing to unpack .../19-libgomp1_14.2.0-7ubuntu1_armhf.deb ... 276s Unpacking libgomp1:armhf (14.2.0-7ubuntu1) ... 277s Selecting previously unselected package libgraphite2-3:armhf. 277s Preparing to unpack .../20-libgraphite2-3_1.3.14-2ubuntu1_armhf.deb ... 277s Unpacking libgraphite2-3:armhf (1.3.14-2ubuntu1) ... 277s Selecting previously unselected package libharfbuzz0b:armhf. 277s Preparing to unpack .../21-libharfbuzz0b_9.0.0-1_armhf.deb ... 277s Unpacking libharfbuzz0b:armhf (9.0.0-1) ... 277s Selecting previously unselected package libimagequant0:armhf. 277s Preparing to unpack .../22-libimagequant0_2.18.0-1build1_armhf.deb ... 277s Unpacking libimagequant0:armhf (2.18.0-1build1) ... 277s Selecting previously unselected package libjpeg-turbo8:armhf. 277s Preparing to unpack .../23-libjpeg-turbo8_2.1.5-2ubuntu2_armhf.deb ... 277s Unpacking libjpeg-turbo8:armhf (2.1.5-2ubuntu2) ... 277s Selecting previously unselected package libjpeg8:armhf. 277s Preparing to unpack .../24-libjpeg8_8c-2ubuntu11_armhf.deb ... 277s Unpacking libjpeg8:armhf (8c-2ubuntu11) ... 277s Selecting previously unselected package liblapack3:armhf. 277s Preparing to unpack .../25-liblapack3_3.12.0-3build2_armhf.deb ... 277s Unpacking liblapack3:armhf (3.12.0-3build2) ... 277s Selecting previously unselected package liblcms2-2:armhf. 277s Preparing to unpack .../26-liblcms2-2_2.14-2build1_armhf.deb ... 277s Unpacking liblcms2-2:armhf (2.14-2build1) ... 277s Selecting previously unselected package liblerc4:armhf. 277s Preparing to unpack .../27-liblerc4_4.0.0+ds-4ubuntu2_armhf.deb ... 277s Unpacking liblerc4:armhf (4.0.0+ds-4ubuntu2) ... 277s Selecting previously unselected package libraqm0:armhf. 277s Preparing to unpack .../28-libraqm0_0.10.1-1build1_armhf.deb ... 277s Unpacking libraqm0:armhf (0.10.1-1build1) ... 277s Selecting previously unselected package libsharpyuv0:armhf. 277s Preparing to unpack .../29-libsharpyuv0_1.4.0-0.1_armhf.deb ... 277s Unpacking libsharpyuv0:armhf (1.4.0-0.1) ... 277s Selecting previously unselected package libjbig0:armhf. 277s Preparing to unpack .../30-libjbig0_2.1-6.1ubuntu2_armhf.deb ... 277s Unpacking libjbig0:armhf (2.1-6.1ubuntu2) ... 277s Selecting previously unselected package libwebp7:armhf. 277s Preparing to unpack .../31-libwebp7_1.4.0-0.1_armhf.deb ... 277s Unpacking libwebp7:armhf (1.4.0-0.1) ... 277s Selecting previously unselected package libtiff6:armhf. 277s Preparing to unpack .../32-libtiff6_4.5.1+git230720-4ubuntu4_armhf.deb ... 277s Unpacking libtiff6:armhf (4.5.1+git230720-4ubuntu4) ... 277s Selecting previously unselected package libwebpdemux2:armhf. 277s Preparing to unpack .../33-libwebpdemux2_1.4.0-0.1_armhf.deb ... 277s Unpacking libwebpdemux2:armhf (1.4.0-0.1) ... 277s Selecting previously unselected package libwebpmux3:armhf. 277s Preparing to unpack .../34-libwebpmux3_1.4.0-0.1_armhf.deb ... 277s Unpacking libwebpmux3:armhf (1.4.0-0.1) ... 277s Selecting previously unselected package python-biopython-doc. 277s Preparing to unpack .../35-python-biopython-doc_1.83+dfsg1-3_all.deb ... 277s Unpacking python-biopython-doc (1.83+dfsg1-3) ... 278s Selecting previously unselected package python3-all. 278s Preparing to unpack .../36-python3-all_3.12.6-0ubuntu1_armhf.deb ... 278s Unpacking python3-all (3.12.6-0ubuntu1) ... 278s Selecting previously unselected package python3-numpy. 278s Preparing to unpack .../37-python3-numpy_1%3a1.26.4+ds-11build1_armhf.deb ... 278s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 278s Selecting previously unselected package libopenjp2-7:armhf. 278s Preparing to unpack .../38-libopenjp2-7_2.5.0-2ubuntu1_armhf.deb ... 278s Unpacking libopenjp2-7:armhf (2.5.0-2ubuntu1) ... 278s Selecting previously unselected package python3-pil:armhf. 278s Preparing to unpack .../39-python3-pil_10.4.0-1ubuntu1_armhf.deb ... 278s Unpacking python3-pil:armhf (10.4.0-1ubuntu1) ... 278s Selecting previously unselected package python3-cairo. 278s Preparing to unpack .../40-python3-cairo_1.26.1-2_armhf.deb ... 278s Unpacking python3-cairo (1.26.1-2) ... 278s Selecting previously unselected package python3-freetype. 278s Preparing to unpack .../41-python3-freetype_2.4.0-2_all.deb ... 278s Unpacking python3-freetype (2.4.0-2) ... 278s Selecting previously unselected package python3-rlpycairo. 279s Preparing to unpack .../42-python3-rlpycairo_0.3.0-3_all.deb ... 279s Unpacking python3-rlpycairo (0.3.0-3) ... 279s Selecting previously unselected package python3-reportlab. 279s Preparing to unpack .../43-python3-reportlab_4.2.2-1_all.deb ... 279s Unpacking python3-reportlab (4.2.2-1) ... 279s Selecting previously unselected package xml-core. 279s Preparing to unpack .../44-xml-core_0.19_all.deb ... 279s Unpacking xml-core (0.19) ... 279s Selecting previously unselected package w3c-sgml-lib. 279s Preparing to unpack .../45-w3c-sgml-lib_1.3-3_all.deb ... 279s Unpacking w3c-sgml-lib (1.3-3) ... 279s Selecting previously unselected package python3-biopython. 279s Preparing to unpack .../46-python3-biopython_1.83+dfsg1-3_armhf.deb ... 279s Unpacking python3-biopython (1.83+dfsg1-3) ... 280s Selecting previously unselected package python3-biopython-sql. 280s Preparing to unpack .../47-python3-biopython-sql_1.83+dfsg1-3_all.deb ... 280s Unpacking python3-biopython-sql (1.83+dfsg1-3) ... 280s Selecting previously unselected package autopkgtest-satdep. 280s Preparing to unpack .../48-1-autopkgtest-satdep.deb ... 280s Unpacking autopkgtest-satdep (0) ... 280s Setting up libgraphite2-3:armhf (1.3.14-2ubuntu1) ... 280s Setting up liblcms2-2:armhf (2.14-2build1) ... 280s Setting up libpixman-1-0:armhf (0.42.2-1build1) ... 280s Setting up libsharpyuv0:armhf (1.4.0-0.1) ... 280s Setting up liblerc4:armhf (4.0.0+ds-4ubuntu2) ... 280s Setting up libxrender1:armhf (1:0.9.10-1.1build1) ... 280s Setting up libxcb-render0:armhf (1.17.0-2) ... 280s Setting up x11-common (1:7.7+23ubuntu3) ... 280s Setting up libdeflate0:armhf (1.21-1) ... 280s Setting up python3-all (3.12.6-0ubuntu1) ... 280s Setting up libxcb-shm0:armhf (1.17.0-2) ... 280s Setting up libgomp1:armhf (14.2.0-7ubuntu1) ... 280s Setting up libjbig0:armhf (2.1-6.1ubuntu2) ... 280s Setting up libfontenc1:armhf (1:1.1.8-1build1) ... 280s Setting up libblas3:armhf (3.12.0-3build2) ... 280s update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode 280s Setting up libfreetype6:armhf (2.13.3+dfsg-1) ... 280s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 280s Setting up libimagequant0:armhf (2.18.0-1build1) ... 280s Setting up fonts-dejavu-mono (2.37-8) ... 280s Setting up fonts-dejavu-core (2.37-8) ... 280s Setting up libjpeg-turbo8:armhf (2.1.5-2ubuntu2) ... 280s Setting up libgfortran5:armhf (14.2.0-7ubuntu1) ... 280s Setting up libwebp7:armhf (1.4.0-0.1) ... 280s Setting up python-biopython-doc (1.83+dfsg1-3) ... 280s Setting up libopenjp2-7:armhf (2.5.0-2ubuntu1) ... 280s Setting up libharfbuzz0b:armhf (9.0.0-1) ... 280s Setting up sgml-base (1.31) ... 280s Setting up libwebpmux3:armhf (1.4.0-0.1) ... 280s Setting up libjpeg8:armhf (8c-2ubuntu11) ... 280s Setting up liblapack3:armhf (3.12.0-3build2) ... 280s update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode 280s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 280s Setting up libwebpdemux2:armhf (1.4.0-0.1) ... 280s Setting up python3-freetype (2.4.0-2) ... 281s Setting up xfonts-utils (1:7.7+7) ... 281s Setting up libraqm0:armhf (0.10.1-1build1) ... 281s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 283s Setting up libtiff6:armhf (4.5.1+git230720-4ubuntu4) ... 283s Setting up xml-core (0.19) ... 284s Setting up libfontconfig1:armhf (2.15.0-1.1ubuntu2) ... 284s Setting up fonts-urw-base35 (20200910-8) ... 284s Setting up libcairo2:armhf (1.18.2-2) ... 284s Setting up python3-pil:armhf (10.4.0-1ubuntu1) ... 284s Setting up python3-cairo (1.26.1-2) ... 284s Setting up python3-rlpycairo (0.3.0-3) ... 285s Setting up python3-reportlab (4.2.2-1) ... 286s Processing triggers for libc-bin (2.40-1ubuntu3) ... 286s Processing triggers for man-db (2.12.1-3) ... 286s Processing triggers for sgml-base (1.31) ... 286s Setting up w3c-sgml-lib (1.3-3) ... 322s Setting up python3-biopython (1.83+dfsg1-3) ... 324s Setting up python3-biopython-sql (1.83+dfsg1-3) ... 324s Setting up autopkgtest-satdep (0) ... 347s (Reading database ... 64563 files and directories currently installed.) 347s Removing autopkgtest-satdep (0) ... 354s autopkgtest [10:17:35]: test dependencies: sh debian/tests/run-unit-test 354s autopkgtest [10:17:35]: test dependencies: [----------------------- 359s mkdir: created directory 'Bio' 359s mkdir: created directory 'Bio/Align' 359s mkdir: created directory 'Bio/Align/substitution_matrices' 359s mkdir: created directory 'Bio/Align/substitution_matrices/data/' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER22' -> 'Bio/Align/substitution_matrices/data/BENNER22' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER6' -> 'Bio/Align/substitution_matrices/data/BENNER6' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER74' -> 'Bio/Align/substitution_matrices/data/BENNER74' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLASTN' -> 'Bio/Align/substitution_matrices/data/BLASTN' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLASTP' -> 'Bio/Align/substitution_matrices/data/BLASTP' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM45' -> 'Bio/Align/substitution_matrices/data/BLOSUM45' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM50' -> 'Bio/Align/substitution_matrices/data/BLOSUM50' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM62' -> 'Bio/Align/substitution_matrices/data/BLOSUM62' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM80' -> 'Bio/Align/substitution_matrices/data/BLOSUM80' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM90' -> 'Bio/Align/substitution_matrices/data/BLOSUM90' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/DAYHOFF' -> 'Bio/Align/substitution_matrices/data/DAYHOFF' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/FENG' -> 'Bio/Align/substitution_matrices/data/FENG' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/GENETIC' -> 'Bio/Align/substitution_matrices/data/GENETIC' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/GONNET1992' -> 'Bio/Align/substitution_matrices/data/GONNET1992' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/HOXD70' -> 'Bio/Align/substitution_matrices/data/HOXD70' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/JOHNSON' -> 'Bio/Align/substitution_matrices/data/JOHNSON' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/JONES' -> 'Bio/Align/substitution_matrices/data/JONES' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/LEVIN' -> 'Bio/Align/substitution_matrices/data/LEVIN' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MCLACHLAN' -> 'Bio/Align/substitution_matrices/data/MCLACHLAN' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MDM78' -> 'Bio/Align/substitution_matrices/data/MDM78' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MEGABLAST' -> 'Bio/Align/substitution_matrices/data/MEGABLAST' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/NUC.4.4' -> 'Bio/Align/substitution_matrices/data/NUC.4.4' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM250' -> 'Bio/Align/substitution_matrices/data/PAM250' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM30' -> 'Bio/Align/substitution_matrices/data/PAM30' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM70' -> 'Bio/Align/substitution_matrices/data/PAM70' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/RAO' -> 'Bio/Align/substitution_matrices/data/RAO' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/RISLER' -> 'Bio/Align/substitution_matrices/data/RISLER' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/SCHNEIDER' -> 'Bio/Align/substitution_matrices/data/SCHNEIDER' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/STR' -> 'Bio/Align/substitution_matrices/data/STR' 359s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/TRANS' -> 'Bio/Align/substitution_matrices/data/TRANS' 359s Remove test test_Tutorial.py which is bound to fail 359s test_Ace ... ok 359s test_Affy ... ok 363s test_AlignIO ... ok 363s test_AlignIO_ClustalIO ... ok 363s test_AlignIO_EmbossIO ... ok 363s test_AlignIO_FastaIO ... ok 363s test_AlignIO_MauveIO ... ok 363s test_AlignIO_PhylipIO ... ok 363s test_AlignIO_convert ... ok 363s test_AlignInfo ... ok 363s test_Align_Alignment ... ok 363s test_Align_a2m ... ok 363s test_Align_bed ... ok 364s test_Align_bigbed ... ok 364s test_Align_bigmaf ... ok 365s test_Align_bigpsl ... ok 365s test_Align_chain ... ok 365s test_Align_clustal ... ok 368s test_Align_codonalign ... ok 369s test_Align_emboss ... ok 369s test_Align_exonerate ... ok 369s test_Align_fasta ... ok 369s test_Align_hhr ... ok 370s test_Align_maf ... ok 370s test_Align_mauve ... ok 370s test_Align_msf ... ok 370s test_Align_nexus ... ok 370s test_Align_phylip ... ok 370s test_Align_psl ... ok 371s test_Align_sam ... ok 373s test_Align_stockholm ... ok 373s test_Align_tabular ... ok 373s test_Application ... ok 373s test_BioSQL_MySQLdb_online ... skipping. internet not available 373s test_BioSQL_mysql_connector ... skipping. BioSQL test configuration file biosql.ini missing (see biosql.ini.sample) 373s test_BioSQL_mysql_connector_online ... skipping. internet not available 373s test_BioSQL_psycopg2_online ... skipping. internet not available 379s test_BioSQL_sqlite3 ... ok 379s test_BioSQL_sqlite3_online ... skipping. internet not available 379s test_Blast_Record ... ok 379s test_CAPS ... ok 379s test_Chi2 ... ok 379s test_ClustalOmega_tool ... skipping. Install clustalo if you want to use Clustal Omega from Biopython. 379s test_Clustalw_tool ... skipping. Install clustalw or clustalw2 if you want to use it from Biopython. 379s test_Cluster ... ok 379s test_CodonTable ... ok 380s test_ColorSpiral ... ok 380s test_Compass ... ok 381s test_Consensus ... ok 381s test_Dialign_tool ... skipping. Install DIALIGN2-2 if you want to use the Bio.Align.Applications wrapper. 381s test_EMBL_unittest ... ok 381s test_Emboss ... skipping. $EMBOSS_ROOT='/usr/lib/emboss' which does not exist! 381s test_EmbossPrimer ... ok 385s test_Entrez ... ok 385s test_Entrez_online ... skipping. internet not available 386s test_Entrez_parser ... ok 386s test_Enzyme ... ok 386s test_ExPASy ... skipping. internet not available 386s test_Fasttree_tool ... skipping. Install FastTree and correctly set the file path to the program if you want to use it from Biopython. 386s test_File ... ok 387s test_GenBank ... ok 389s test_GenomeDiagram ... Warn: Can't find .pfb for face 'Helvetica' 391s ok 392s test_GraphicsChromosome ... ok 392s test_GraphicsDistribution ... ok 393s test_GraphicsGeneral ... ok 393s test_HMMCasino ... ok 393s test_HMMGeneral ... ok 393s test_KEGG ... ok 393s test_KEGG_online ... skipping. internet not available 399s test_KGML_graphics ... ok 399s test_KGML_graphics_online ... skipping. internet not available 400s test_KGML_nographics ... ok 400s test_KeyWList ... ok 400s test_LogisticRegression ... ok 401s test_MafIO_index ... ok 401s test_Mafft_tool ... skipping. Install MAFFT if you want to use the Bio.Align.Applications wrapper. 402s test_MarkovModel ... ok 402s test_Medline ... ok 402s test_Muscle_tool ... skipping. Install MUSCLE if you want to use the Bio.Align.Applications wrapper. 403s test_NCBIXML ... ok 403s test_NCBI_BLAST_tools ... skipping. Install the NCBI BLAST+ command line tools if you want to use the Bio.Blast.Applications wrapper. 403s test_NCBI_qblast ... ok 403s test_NMR ... ok 403s test_NaiveBayes ... ok 403s test_Nexus ... ok 404s test_PAML_baseml ... ok 404s test_PAML_codeml ... ok 405s test_PAML_yn00 ... ok 405s test_PDBList ... skipping. internet not available 408s test_PDB_CEAligner ... ok 408s test_PDB_DSSP ... ok 408s test_PDB_Dice ... ok 408s test_PDB_Disordered ... ok 409s test_PDB_Exposure ... ok 409s test_PDB_FragmentMapper ... ok 410s test_PDB_KDTree ... ok 411s test_PDB_MMCIF2Dict ... ok 411s test_PDB_MMCIFIO ... ok 412s test_PDB_MMCIFParser ... ok 412s test_PDB_NACCESS ... ok 413s test_PDB_PDBIO ... ok 413s test_PDB_PDBParser ... ok 413s 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 413s test_PDB_Polypeptide ... ok 413s test_PDB_QCPSuperimposer ... ok 417s test_PDB_SASA ... ok 417s test_PDB_SMCRA ... ok 417s test_PDB_Selection ... ok 418s test_PDB_StructureAlignment ... ok 418s test_PDB_Superimposer ... ok 418s test_PDB_internal_coords ... skipping. Error: Install mmtf to use Bio.PDB.mmtf (e.g. pip install mmtf-python) 418s 418s test_PDB_parse_pdb_header ... ok 418s test_PDB_vectors ... ok 418s test_PQR ... ok 418s test_Pathway ... ok 419s test_Phd ... ok 419s test_Phylo ... ok 420s test_PhyloXML ... ok 420s test_Phylo_CDAO ... skipping. Install RDFlib if you want to use the CDAO tree format. 420s test_Phylo_NeXML ... ok 420s test_Phylo_matplotlib ... skipping. Install matplotlib if you want to use Bio.Phylo._utils. 420s test_Phylo_networkx ... skipping. Install networkx if you wish to use it with Bio.Phylo 420s test_PopGen_GenePop_nodepend ... ok 421s test_Prank_tool ... skipping. Install PRANK if you want to use the Bio.Align.Applications wrapper. 421s test_Probcons_tool ... skipping. Install PROBCONS if you want to use the Bio.Align.Applications wrapper. 421s test_ProtParam ... ok 421s test_RCSBFormats ... ok 421s test_Restriction ... ok 422s test_SCOP_Astral ... ok 422s test_SCOP_Cla ... ok 422s test_SCOP_Des ... ok 422s test_SCOP_Dom ... ok 422s test_SCOP_Hie ... ok 422s test_SCOP_Raf ... ok 422s test_SCOP_Residues ... ok 422s test_SCOP_Scop ... ok 422s test_SCOP_online ... skipping. internet not available 423s test_SVDSuperimposer ... ok 423s test_SearchIO_blast_tab ... ok 423s test_SearchIO_blast_tab_index ... ok 423s test_SearchIO_blast_xml ... ok 424s test_SearchIO_blast_xml_index ... ok 425s test_SearchIO_blat_psl ... ok 425s test_SearchIO_blat_psl_index ... ok 425s test_SearchIO_exonerate ... ok 425s test_SearchIO_exonerate_text_index ... ok 425s test_SearchIO_exonerate_vulgar_index ... ok 425s test_SearchIO_fasta_m10 ... ok 426s test_SearchIO_fasta_m10_index ... ok 426s test_SearchIO_hhsuite2_text ... ok 426s test_SearchIO_hmmer2_text ... ok 426s test_SearchIO_hmmer2_text_index ... ok 426s test_SearchIO_hmmer3_domtab ... ok 426s test_SearchIO_hmmer3_domtab_index ... ok 427s test_SearchIO_hmmer3_tab ... ok 427s test_SearchIO_hmmer3_tab_index ... ok 427s test_SearchIO_hmmer3_text ... ok 427s test_SearchIO_hmmer3_text_index ... ok 427s test_SearchIO_interproscan_xml ... ok 427s test_SearchIO_model ... ok 428s test_SearchIO_write ... ok 428s 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. 428s warnings.warn( 428s ok 446s test_SeqIO ... ok 447s test_SeqIO_AbiIO ... ok 447s test_SeqIO_FastaIO ... ok 447s test_SeqIO_Gck ... ok 447s test_SeqIO_Insdc ... ok 447s test_SeqIO_NibIO ... ok 450s test_SeqIO_PdbIO ... ok 450s test_SeqIO_QualityIO ... ok 450s test_SeqIO_SeqXML ... ok 450s test_SeqIO_SnapGene ... ok 451s test_SeqIO_TwoBitIO ... ok 451s test_SeqIO_Xdna ... ok 452s 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 452s warnings.warn( 452s ok 470s test_SeqIO_index ... ok 470s test_SeqIO_online ... skipping. internet not available 470s test_SeqIO_write ... ok 470s test_SeqRecord ... ok 470s test_SeqUtils ... ok 472s test_Seq_objs ... ok 472s test_SffIO ... ok 472s test_SwissProt ... ok 472s test_TCoffee_tool ... skipping. Install TCOFFEE if you want to use the Bio.Align.Applications wrapper. 472s test_TogoWS ... skipping. internet not available 473s test_TreeConstruction ... ok 473s test_UniGene ... ok 473s test_UniProt_GOA ... ok 473s test_Uniprot ... ok 473s test_align ... ok 474s test_align_substitution_matrices ... ok 476s test_bgzf ... ok 476s test_cellosaurus ... ok 481s test_codonalign ... ok 481s test_geo ... ok 481s test_kNN ... ok 481s test_motifs ... ok 482s test_motifs_online ... skipping. internet not available 482s 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. 482s warnings.warn( 482s ok 482s test_pairwise2_no_C ... ok 482s test_pairwise_aligner ... ok 482s test_pairwise_alignment_map ... ok 492s test_phenotype ... ok 492s test_phenotype_fit ... skipping. Install SciPy if you want to use Bio.phenotype fit functionality. 492s 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. 492s test_prodoc ... ok 492s test_prosite ... ok 492s test_raxml_tool ... skipping. Install RAxML (binary raxmlHPC) if you want to test the Bio.Phylo.Applications wrapper. 492s test_samtools_tool ... skipping. Install samtools and correctly set the file path to the program if you want to use it from Biopython 492s test_seq ... ok 493s test_translate ... ok 493s ---------------------------------------------------------------------- 493s Ran 211 tests in 133.314 seconds 493s 493s Skipping any tests requiring internet access 493s Python version: 3.12.7 (main, Oct 3 2024, 15:15:22) [GCC 14.2.0] 493s Operating system: posix linux 494s autopkgtest [10:19:55]: test dependencies: -----------------------] 498s autopkgtest [10:19:59]: test dependencies: - - - - - - - - - - results - - - - - - - - - - 498s dependencies PASS 502s autopkgtest [10:20:03]: test full_suite: preparing testbed 560s autopkgtest [10:21:01]: testbed dpkg architecture: armhf 562s autopkgtest [10:21:03]: testbed apt version: 2.9.8 562s autopkgtest [10:21:03]: @@@@@@@@@@@@@@@@@@@@ test bed setup 571s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 571s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 572s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [212 kB] 572s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [28.1 kB] 572s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [2840 B] 572s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf Packages [36.7 kB] 572s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf Packages [233 kB] 572s Fetched 593 kB in 1s (781 kB/s) 572s Reading package lists... 589s tee: /proc/self/fd/2: Permission denied 611s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 611s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 611s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 611s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 612s Reading package lists... 612s Reading package lists... 613s Building dependency tree... 613s Reading state information... 614s Calculating upgrade... 615s The following packages were automatically installed and are no longer required: 615s libperl5.38t64 perl-modules-5.38 615s Use 'apt autoremove' to remove them. 615s The following NEW packages will be installed: 615s libperl5.40 perl-modules-5.40 python3-jaraco.text 615s The following packages will be upgraded: 615s base-files distro-info-data fwupd gcc-14-base info install-info iproute2 615s libatomic1 libdw1t64 libelf1t64 libfwupd2 libgcc-s1 libkeyutils1 615s liblocale-gettext-perl libsgutils2-1.46-2 libstdc++6 libtext-charwidth-perl 615s libtext-iconv-perl motd-news-config perl perl-base python3-pkg-resources 615s python3-setuptools sg3-utils sg3-utils-udev vim-common vim-tiny xxd 615s 28 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. 615s Need to get 19.2 MB of archives. 615s After this operation, 42.7 MB of additional disk space will be used. 615s Get:1 http://ftpmaster.internal/ubuntu plucky/main armhf motd-news-config all 13.5ubuntu2 [5274 B] 615s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf base-files armhf 13.5ubuntu2 [68.6 kB] 615s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf perl-modules-5.40 all 5.40.0-6 [3214 kB] 616s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf libperl5.40 armhf 5.40.0-6 [4140 kB] 616s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf perl armhf 5.40.0-6 [262 kB] 616s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf perl-base armhf 5.40.0-6 [1674 kB] 616s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf liblocale-gettext-perl armhf 1.07-7build1 [15.0 kB] 616s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf libtext-iconv-perl armhf 1.7-8build4 [12.8 kB] 616s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf libtext-charwidth-perl armhf 0.04-11build4 [9128 B] 616s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf libatomic1 armhf 14.2.0-7ubuntu1 [7842 B] 616s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14-base armhf 14.2.0-7ubuntu1 [51.2 kB] 616s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf libstdc++6 armhf 14.2.0-7ubuntu1 [711 kB] 616s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf libgcc-s1 armhf 14.2.0-7ubuntu1 [40.8 kB] 616s Get:14 http://ftpmaster.internal/ubuntu plucky/main armhf install-info armhf 7.1.1-1 [61.4 kB] 616s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf distro-info-data all 0.63 [6588 B] 616s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf libdw1t64 armhf 0.192-4 [243 kB] 616s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf libelf1t64 armhf 0.192-4 [50.2 kB] 616s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf iproute2 armhf 6.10.0-2ubuntu1 [1082 kB] 616s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf libkeyutils1 armhf 1.6.3-4ubuntu2 [8712 B] 616s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf vim-tiny armhf 2:9.1.0777-1ubuntu1 [693 kB] 616s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf vim-common all 2:9.1.0777-1ubuntu1 [394 kB] 616s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf xxd armhf 2:9.1.0777-1ubuntu1 [66.8 kB] 616s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf info armhf 7.1.1-1 [126 kB] 616s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf libfwupd2 armhf 1.9.26-2 [125 kB] 616s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf fwupd armhf 1.9.26-2 [4404 kB] 616s Get:26 http://ftpmaster.internal/ubuntu plucky/main armhf libsgutils2-1.46-2 armhf 1.46-3ubuntu5 [82.5 kB] 616s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jaraco.text all 4.0.0-1 [11.5 kB] 616s Get:28 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf python3-pkg-resources all 75.2.0-1 [134 kB] 616s Get:29 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf python3-setuptools all 75.2.0-1 [657 kB] 616s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf sg3-utils armhf 1.46-3ubuntu5 [816 kB] 616s Get:31 http://ftpmaster.internal/ubuntu plucky/main armhf sg3-utils-udev all 1.46-3ubuntu5 [5916 B] 617s Preconfiguring packages ... 617s Fetched 19.2 MB in 1s (14.1 MB/s) 617s (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 ... 59386 files and directories currently installed.) 617s Preparing to unpack .../motd-news-config_13.5ubuntu2_all.deb ... 617s Unpacking motd-news-config (13.5ubuntu2) over (13.3ubuntu6) ... 617s Preparing to unpack .../base-files_13.5ubuntu2_armhf.deb ... 617s Unpacking base-files (13.5ubuntu2) over (13.3ubuntu6) ... 617s Setting up base-files (13.5ubuntu2) ... 617s Installing new version of config file /etc/issue ... 617s Installing new version of config file /etc/issue.net ... 617s Installing new version of config file /etc/lsb-release ... 618s motd-news.service is a disabled or a static unit not running, not starting it. 618s (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 ... 61462 files and directories currently installed.) 620s Preparing to unpack .../liblocale-gettext-perl_1.07-7build1_armhf.deb ... 620s Unpacking liblocale-gettext-perl (1.07-7build1) over (1.07-7) ... 620s Preparing to unpack .../libtext-iconv-perl_1.7-8build4_armhf.deb ... 620s Unpacking libtext-iconv-perl:armhf (1.7-8build4) over (1.7-8build3) ... 620s Preparing to unpack .../libtext-charwidth-perl_0.04-11build4_armhf.deb ... 620s Unpacking libtext-charwidth-perl:armhf (0.04-11build4) over (0.04-11build3) ... 620s Preparing to unpack .../libatomic1_14.2.0-7ubuntu1_armhf.deb ... 620s Unpacking libatomic1:armhf (14.2.0-7ubuntu1) over (14.2.0-4ubuntu2) ... 620s Preparing to unpack .../gcc-14-base_14.2.0-7ubuntu1_armhf.deb ... 620s Unpacking gcc-14-base:armhf (14.2.0-7ubuntu1) over (14.2.0-4ubuntu2) ... 620s Setting up gcc-14-base:armhf (14.2.0-7ubuntu1) ... 620s (Reading database ... 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.../03-iproute2_6.10.0-2ubuntu1_armhf.deb ... 621s Unpacking iproute2 (6.10.0-2ubuntu1) over (6.10.0-2) ... 621s Preparing to unpack .../04-libkeyutils1_1.6.3-4ubuntu2_armhf.deb ... 621s Unpacking libkeyutils1:armhf (1.6.3-4ubuntu2) over (1.6.3-3build1) ... 621s Preparing to unpack .../05-vim-tiny_2%3a9.1.0777-1ubuntu1_armhf.deb ... 621s Unpacking vim-tiny (2:9.1.0777-1ubuntu1) over (2:9.1.0496-1ubuntu6) ... 621s Preparing to unpack .../06-vim-common_2%3a9.1.0777-1ubuntu1_all.deb ... 621s Unpacking vim-common (2:9.1.0777-1ubuntu1) over (2:9.1.0496-1ubuntu6) ... 621s Preparing to unpack .../07-xxd_2%3a9.1.0777-1ubuntu1_armhf.deb ... 621s Unpacking xxd (2:9.1.0777-1ubuntu1) over (2:9.1.0496-1ubuntu6) ... 621s Preparing to unpack .../08-info_7.1.1-1_armhf.deb ... 621s Unpacking info (7.1.1-1) over (7.1-3build2) ... 621s Preparing to unpack .../09-libfwupd2_1.9.26-2_armhf.deb ... 621s Unpacking libfwupd2:armhf (1.9.26-2) over (1.9.24-1) ... 621s Preparing to unpack .../10-fwupd_1.9.26-2_armhf.deb ... 622s Unpacking fwupd (1.9.26-2) over (1.9.24-1) ... 622s Preparing to unpack .../11-libsgutils2-1.46-2_1.46-3ubuntu5_armhf.deb ... 622s Unpacking libsgutils2-1.46-2:armhf (1.46-3ubuntu5) over (1.46-3ubuntu4) ... 622s Selecting previously unselected package python3-jaraco.text. 622s Preparing to unpack .../12-python3-jaraco.text_4.0.0-1_all.deb ... 622s Unpacking python3-jaraco.text (4.0.0-1) ... 622s Preparing to unpack .../13-python3-pkg-resources_75.2.0-1_all.deb ... 622s Unpacking python3-pkg-resources (75.2.0-1) over (74.1.2-1) ... 622s Preparing to unpack .../14-python3-setuptools_75.2.0-1_all.deb ... 622s Unpacking python3-setuptools (75.2.0-1) over (74.1.2-1) ... 622s Preparing to unpack .../15-sg3-utils_1.46-3ubuntu5_armhf.deb ... 622s Unpacking sg3-utils (1.46-3ubuntu5) over (1.46-3ubuntu4) ... 623s Preparing to unpack .../16-sg3-utils-udev_1.46-3ubuntu5_all.deb ... 623s Unpacking sg3-utils-udev (1.46-3ubuntu5) over (1.46-3ubuntu4) ... 623s Setting up python3-pkg-resources (75.2.0-1) ... 623s Setting up motd-news-config (13.5ubuntu2) ... 623s Setting up libtext-iconv-perl:armhf (1.7-8build4) ... 623s Setting up libtext-charwidth-perl:armhf (0.04-11build4) ... 623s Setting up libkeyutils1:armhf (1.6.3-4ubuntu2) ... 623s Setting up distro-info-data (0.63) ... 623s Setting up libfwupd2:armhf (1.9.26-2) ... 623s Setting up libsgutils2-1.46-2:armhf (1.46-3ubuntu5) ... 623s Setting up xxd (2:9.1.0777-1ubuntu1) ... 623s Setting up libelf1t64:armhf (0.192-4) ... 623s Setting up libdw1t64:armhf (0.192-4) ... 623s Setting up vim-common (2:9.1.0777-1ubuntu1) ... 623s Installing new version of config file /etc/vim/vimrc ... 623s Setting up python3-jaraco.text (4.0.0-1) ... 623s Setting up libatomic1:armhf (14.2.0-7ubuntu1) ... 623s Setting up perl-modules-5.40 (5.40.0-6) ... 623s Setting up fwupd (1.9.26-2) ... 624s fwupd-offline-update.service is a disabled or a static unit not running, not starting it. 624s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 624s fwupd.service is a disabled or a static unit not running, not starting it. 624s Setting up info (7.1.1-1) ... 624s Setting up liblocale-gettext-perl (1.07-7build1) ... 624s Setting up sg3-utils (1.46-3ubuntu5) ... 624s Setting up python3-setuptools (75.2.0-1) ... 625s Setting up iproute2 (6.10.0-2ubuntu1) ... 625s Setting up vim-tiny (2:9.1.0777-1ubuntu1) ... 625s Setting up sg3-utils-udev (1.46-3ubuntu5) ... 625s update-initramfs: deferring update (trigger activated) 625s Setting up libperl5.40:armhf (5.40.0-6) ... 625s Setting up perl (5.40.0-6) ... 625s Processing triggers for dbus (1.14.10-4ubuntu5) ... 625s Processing triggers for install-info (7.1.1-1) ... 626s Processing triggers for initramfs-tools (0.142ubuntu34) ... 626s Processing triggers for libc-bin (2.40-1ubuntu3) ... 626s Processing triggers for man-db (2.12.1-3) ... 627s Processing triggers for plymouth-theme-ubuntu-text (24.004.60-1ubuntu10) ... 627s update-initramfs: deferring update (trigger activated) 627s Processing triggers for initramfs-tools (0.142ubuntu34) ... 628s Reading package lists... 628s Building dependency tree... 628s Reading state information... 630s The following packages will be REMOVED: 630s libperl5.38t64* perl-modules-5.38* 630s 0 upgraded, 0 newly installed, 2 to remove and 0 not upgraded. 630s After this operation, 41.6 MB disk space will be freed. 630s (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 ... 61471 files and directories currently installed.) 630s Removing libperl5.38t64:armhf (5.38.2-5) ... 630s Removing perl-modules-5.38 (5.38.2-5) ... 630s Processing triggers for man-db (2.12.1-3) ... 631s Processing triggers for libc-bin (2.40-1ubuntu3) ... 633s autopkgtest [10:22:14]: rebooting testbed after setup commands that affected boot 744s Reading package lists... 745s Building dependency tree... 745s Reading state information... 745s Starting pkgProblemResolver with broken count: 0 746s Starting 2 pkgProblemResolver with broken count: 0 746s Done 747s The following additional packages will be installed: 747s autoconf automake autopoint autotools-dev blt build-essential bwa clustalo 747s cpp cpp-14 cpp-14-arm-linux-gnueabihf cpp-arm-linux-gnueabihf debhelper 747s debugedit dh-autoreconf dh-python dh-strip-nondeterminism dialign dssp dwz 747s fasttree flex fontconfig-config fonts-dejavu-core fonts-dejavu-mono 747s fonts-lmodern fonts-lyx fonts-urw-base35 g++ g++-14 747s g++-14-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc gcc-14 747s gcc-14-arm-linux-gnueabihf gcc-arm-linux-gnueabihf gettext ghostscript hevea 747s hicolor-icon-theme imagemagick imagemagick-6-common imagemagick-6.q16 747s intltool-debian libaom3 libapache-pom-java libarchive-zip-perl 747s libargtable2-0 libasan8 libavahi-client3 libavahi-common-data 747s libavahi-common3 libblas3 libc-dev-bin libc6-dev libcairo2 libcc1-0 747s libcifpp-data libcifpp5 libcommons-logging-java libcommons-parent-java 747s libcrypt-dev libcups2t64 libde265-0 libdebhelper-perl libdeflate0 747s libexpat1-dev libfftw3-double3 libfile-stripnondeterminism-perl 747s libfontbox-java libfontconfig1 libfontenc1 libfreetype6 libgcc-14-dev 747s libgfortran5 libgomp1 libgraphite2-3 libgs-common libgs10 libgs10-common 747s libharfbuzz0b libheif-plugin-aomdec libheif-plugin-libde265 libheif1 libice6 747s libidn12 libijs-0.35 libimagequant0 libisl23 libjbig0 libjbig2dec0 747s libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui libjs-sphinxdoc 747s libjs-underscore libkpathsea6 liblapack3 liblbfgsb0 liblcms2-2 liblerc4 747s liblqr-1-0 libltdl7 libmagickcore-6.q16-7t64 libmagickwand-6.q16-7t64 747s libmbedcrypto7t64 libmbedtls14t64 libmbedx509-1t64 libmpc3 libmpfi0 747s libmysqlclient21 libnetpbm11t64 libopenjp2-7 libpaper-utils libpaper1 747s libpdfbox-java libpixman-1-0 libpotrace0 libptexenc1 libpython3-all-dev 747s libpython3-dev libpython3.12-dev libpython3.12t64 libqhull-r8.0 libraqm0 747s libraw23t64 libsharpyuv0 libsm6 libstdc++-14-dev libsynctex2 libtcl8.6 747s libteckit0 libtexlua53-5 libtiff6 libtk8.6 libtool libubsan1 libwebp7 747s libwebpdemux2 libwebpmux3 libxaw7 libxcb-render0 libxcb-shm0 libxft2 libxi6 747s libxmu6 libxpm4 libxrender1 libxslt1.1 libxss1 libxt6t64 libzzip-0-13t64 747s linux-libc-dev m4 mafft mysql-common ncbi-blast+ ncbi-data netpbm phylip 747s po-debconf poppler-data prank preview-latex-style probcons 747s python-biopython-doc python-matplotlib-data python3-all python3-all-dev 747s python3-appdirs python3-biopython python3-biopython-sql python3-brotli 747s python3-cairo python3-contourpy python3-cycler python3-dateutil 747s python3-decorator python3-dev python3-fonttools python3-freetype python3-fs 747s python3-isodate python3-kiwisolver python3-lxml python3-lz4 747s python3-matplotlib python3-mmtf python3-mpmath python3-msgpack 747s python3-mysqldb python3-networkx python3-numpy python3-packaging python3-pil 747s python3-pil.imagetk python3-rdflib python3-reportlab python3-rlpycairo 747s python3-scipy python3-six python3-sympy python3-tk python3-tz 747s python3-ufolib2 python3.12-dev python3.12-tk rpcsvc-proto sgml-base t-coffee 747s t1utils tex-common texlive-base texlive-binaries texlive-fonts-recommended 747s texlive-latex-base texlive-latex-extra texlive-latex-recommended 747s texlive-pictures tk8.6-blt2.5 unicode-data w3c-sgml-lib wise wise-data 747s x11-common xdg-utils xfonts-encodings xfonts-utils xml-core zlib1g-dev 747s Suggested packages: 747s autoconf-archive gnu-standards autoconf-doc blt-demo samtools cpp-doc 747s gcc-14-locales cpp-14-doc dh-make flit python3-build python3-installer 747s python3-wheel bison flex-doc fonts-freefont-otf | fonts-freefont-ttf 747s fonts-texgyre gcc-14-doc gcc-multilib manpages-dev gdb gcc-doc 747s gdb-arm-linux-gnueabihf gettext-doc libasprintf-dev libgettextpo-dev 747s hevea-doc imagemagick-6-doc autotrace cups-bsd | lpr | lprng enscript ffmpeg 747s gimp gnuplot grads graphviz hp2xx html2ps libwmf-bin mplayer povray radiance 747s sane-utils transfig libraw-bin libc-devtools glibc-doc 747s libavalon-framework-java libexcalibur-logkit-java liblog4j1.2-java 747s cups-common libfftw3-bin libfftw3-dev libheif-plugin-x265 747s libheif-plugin-ffmpegdec libheif-plugin-jpegdec libheif-plugin-jpegenc 747s libheif-plugin-j2kdec libheif-plugin-j2kenc libheif-plugin-kvazaar 747s libheif-plugin-rav1e libheif-plugin-svtenc libjs-jquery-ui-docs 747s liblcms2-utils libmagickcore-6.q16-7-extra libmpfi-doc libstdc++-14-doc 747s tcl8.6 tk8.6 libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc 747s phylip-doc libmail-box-perl poppler-utils fonts-japanese-mincho 747s | fonts-ipafont-mincho fonts-japanese-gothic | fonts-ipafont-gothic 747s fonts-arphic-ukai fonts-arphic-uming fonts-nanum probcons-extra clustalw 747s emboss muscle3 phyml python3-psycopg2 raxml python-cycler-doc 747s python-lxml-doc cm-super-minimal dvipng fonts-staypuft gir1.2-gtk-3.0 747s inkscape ipython3 librsvg2-common python-matplotlib-doc python3-cairocffi 747s python3-gi-cairo python3-gobject python3-pyqt5 python3-sip python3-tornado 747s texlive-extra-utils python-mpmath-doc python3-gmpy2 default-mysql-server 747s | virtual-mysql-server python3-gdal python3-pydot python3-pygraphviz 747s gfortran python-numpy-doc python3-pytest python-pil-doc python-rdflib-doc 747s pdf-viewer python3-egenix-mxtexttools python-reportlab-doc rl-accel 747s rl-renderpm python-scipy-doc texlive-fonts-extra python-sympy-doc tix 747s python3-tk-dbg python3.13-tk sgml-base-doc boxshade seaview 747s t-coffee-examples perl-tk xpdf | pdf-viewer xzdec texlive-binaries-sse2 747s hintview texlive-fonts-recommended-doc texlive-latex-base-doc wp2latex 747s icc-profiles libfile-which-perl texlive-latex-extra-doc texlive-science 747s texlive-latex-recommended-doc texlive-luatex texlive-pstricks dot2tex prerex 747s texlive-pictures-doc vprerex wise-doc 747s Recommended packages: 747s libfl-dev libmagickcore-6.q16-7-extra manpages manpages-dev 747s libarchive-cpio-perl fonts-droid-fallback libheif-plugin-aomenc 747s javascript-common libltdl-dev blast2 libwww-perl lynx ruby 747s libmail-sendmail-perl python3-bs4 python3-cssselect python3-html5lib 747s python3-olefile python3-sparqlwrapper fonts-dejavu-extra isympy-common 747s amap-align clustalw dialign-tx fsa kalign libsoap-lite-perl 747s libxml-simple-perl muscle mustang poa proda tm-align lmodern dvisvgm 747s tex-gyre tipa default-jre libspreadsheet-parseexcel-perl 747s texlive-plain-generic tk libfile-mimeinfo-perl libnet-dbus-perl 747s libx11-protocol-perl x11-utils x11-xserver-utils 747s The following NEW packages will be installed: 747s autoconf automake autopkgtest-satdep autopoint autotools-dev blt 747s build-essential bwa clustalo cpp cpp-14 cpp-14-arm-linux-gnueabihf 747s cpp-arm-linux-gnueabihf debhelper debugedit dh-autoreconf dh-python 747s dh-strip-nondeterminism dialign dssp dwz fasttree flex fontconfig-config 747s fonts-dejavu-core fonts-dejavu-mono fonts-lmodern fonts-lyx fonts-urw-base35 747s g++ g++-14 g++-14-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc gcc-14 747s gcc-14-arm-linux-gnueabihf gcc-arm-linux-gnueabihf gettext ghostscript hevea 747s hicolor-icon-theme imagemagick imagemagick-6-common imagemagick-6.q16 747s intltool-debian libaom3 libapache-pom-java libarchive-zip-perl 747s libargtable2-0 libasan8 libavahi-client3 libavahi-common-data 747s libavahi-common3 libblas3 libc-dev-bin libc6-dev libcairo2 libcc1-0 747s libcifpp-data libcifpp5 libcommons-logging-java libcommons-parent-java 747s libcrypt-dev libcups2t64 libde265-0 libdebhelper-perl libdeflate0 747s libexpat1-dev libfftw3-double3 libfile-stripnondeterminism-perl 747s libfontbox-java libfontconfig1 libfontenc1 libfreetype6 libgcc-14-dev 747s libgfortran5 libgomp1 libgraphite2-3 libgs-common libgs10 libgs10-common 747s libharfbuzz0b libheif-plugin-aomdec libheif-plugin-libde265 libheif1 libice6 747s libidn12 libijs-0.35 libimagequant0 libisl23 libjbig0 libjbig2dec0 747s libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui libjs-sphinxdoc 747s libjs-underscore libkpathsea6 liblapack3 liblbfgsb0 liblcms2-2 liblerc4 747s liblqr-1-0 libltdl7 libmagickcore-6.q16-7t64 libmagickwand-6.q16-7t64 747s libmbedcrypto7t64 libmbedtls14t64 libmbedx509-1t64 libmpc3 libmpfi0 747s libmysqlclient21 libnetpbm11t64 libopenjp2-7 libpaper-utils libpaper1 747s libpdfbox-java libpixman-1-0 libpotrace0 libptexenc1 libpython3-all-dev 747s libpython3-dev libpython3.12-dev libpython3.12t64 libqhull-r8.0 libraqm0 747s libraw23t64 libsharpyuv0 libsm6 libstdc++-14-dev libsynctex2 libtcl8.6 747s libteckit0 libtexlua53-5 libtiff6 libtk8.6 libtool libubsan1 libwebp7 747s libwebpdemux2 libwebpmux3 libxaw7 libxcb-render0 libxcb-shm0 libxft2 libxi6 747s libxmu6 libxpm4 libxrender1 libxslt1.1 libxss1 libxt6t64 libzzip-0-13t64 747s linux-libc-dev m4 mafft mysql-common ncbi-blast+ ncbi-data netpbm phylip 747s po-debconf poppler-data prank preview-latex-style probcons 747s python-biopython-doc python-matplotlib-data python3-all python3-all-dev 747s python3-appdirs python3-biopython python3-biopython-sql python3-brotli 747s python3-cairo python3-contourpy python3-cycler python3-dateutil 747s python3-decorator python3-dev python3-fonttools python3-freetype python3-fs 747s python3-isodate python3-kiwisolver python3-lxml python3-lz4 747s python3-matplotlib python3-mmtf python3-mpmath python3-msgpack 747s python3-mysqldb python3-networkx python3-numpy python3-packaging python3-pil 747s python3-pil.imagetk python3-rdflib python3-reportlab python3-rlpycairo 747s python3-scipy python3-six python3-sympy python3-tk python3-tz 747s python3-ufolib2 python3.12-dev python3.12-tk rpcsvc-proto sgml-base t-coffee 747s t1utils tex-common texlive-base texlive-binaries texlive-fonts-recommended 747s texlive-latex-base texlive-latex-extra texlive-latex-recommended 747s texlive-pictures tk8.6-blt2.5 unicode-data w3c-sgml-lib wise wise-data 747s x11-common xdg-utils xfonts-encodings xfonts-utils xml-core zlib1g-dev 747s 0 upgraded, 232 newly installed, 0 to remove and 0 not upgraded. 747s Need to get 300 MB/300 MB of archives. 747s After this operation, 1057 MB of additional disk space will be used. 747s Get:1 /tmp/autopkgtest.lF7bMj/2-autopkgtest-satdep.deb autopkgtest-satdep armhf 0 [968 B] 747s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf m4 armhf 1.4.19-4build1 [235 kB] 748s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf flex armhf 2.6.4-8.2build1 [293 kB] 748s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf libgomp1 armhf 14.2.0-7ubuntu1 [125 kB] 748s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf libfftw3-double3 armhf 3.3.10-1ubuntu4 [368 kB] 748s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf libfreetype6 armhf 2.13.3+dfsg-1 [330 kB] 748s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf fonts-dejavu-mono all 2.37-8 [502 kB] 748s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf fonts-dejavu-core all 2.37-8 [835 kB] 748s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf libfontenc1 armhf 1:1.1.8-1build1 [11.5 kB] 748s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf x11-common all 1:7.7+23ubuntu3 [21.7 kB] 748s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 748s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf xfonts-utils armhf 1:7.7+7 [90.6 kB] 748s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf fonts-urw-base35 all 20200910-8 [11.0 MB] 748s Get:14 http://ftpmaster.internal/ubuntu plucky/main armhf fontconfig-config armhf 2.15.0-1.1ubuntu2 [37.4 kB] 748s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf libfontconfig1 armhf 2.15.0-1.1ubuntu2 [113 kB] 748s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf libsharpyuv0 armhf 1.4.0-0.1 [16.3 kB] 748s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf libaom3 armhf 3.9.1-1 [1712 kB] 748s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf libheif-plugin-aomdec armhf 1.18.1-2 [10.6 kB] 748s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf libde265-0 armhf 1.0.15-1build4 [157 kB] 748s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf libheif-plugin-libde265 armhf 1.18.1-2 [11.1 kB] 748s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf libheif1 armhf 1.18.1-2 [288 kB] 748s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf libjbig0 armhf 2.1-6.1ubuntu2 [24.9 kB] 748s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf libjpeg-turbo8 armhf 2.1.5-2ubuntu2 [125 kB] 748s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf libjpeg8 armhf 8c-2ubuntu11 [2148 B] 748s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf liblcms2-2 armhf 2.14-2build1 [132 kB] 748s Get:26 http://ftpmaster.internal/ubuntu plucky/universe armhf liblqr-1-0 armhf 0.4.2-2.1build2 [23.2 kB] 748s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf libltdl7 armhf 2.4.7-7build1 [37.6 kB] 748s Get:28 http://ftpmaster.internal/ubuntu plucky/main armhf libopenjp2-7 armhf 2.5.0-2ubuntu1 [170 kB] 748s Get:29 http://ftpmaster.internal/ubuntu plucky/main armhf libraw23t64 armhf 0.21.2-2.1build1 [352 kB] 748s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf libdeflate0 armhf 1.21-1 [38.8 kB] 748s Get:31 http://ftpmaster.internal/ubuntu plucky/main armhf liblerc4 armhf 4.0.0+ds-4ubuntu2 [151 kB] 748s Get:32 http://ftpmaster.internal/ubuntu plucky/main armhf libwebp7 armhf 1.4.0-0.1 [184 kB] 748s Get:33 http://ftpmaster.internal/ubuntu plucky/main armhf libtiff6 armhf 4.5.1+git230720-4ubuntu4 [179 kB] 748s Get:34 http://ftpmaster.internal/ubuntu plucky/main armhf libwebpdemux2 armhf 1.4.0-0.1 [11.8 kB] 748s Get:35 http://ftpmaster.internal/ubuntu plucky/main armhf libwebpmux3 armhf 1.4.0-0.1 [22.5 kB] 748s Get:36 http://ftpmaster.internal/ubuntu plucky/universe armhf imagemagick-6-common all 8:6.9.13.12+dfsg1-1build1 [69.6 kB] 748s Get:37 http://ftpmaster.internal/ubuntu plucky/universe armhf libmagickcore-6.q16-7t64 armhf 8:6.9.13.12+dfsg1-1build1 [1748 kB] 748s Get:38 http://ftpmaster.internal/ubuntu plucky/universe armhf libmagickwand-6.q16-7t64 armhf 8:6.9.13.12+dfsg1-1build1 [336 kB] 748s Get:39 http://ftpmaster.internal/ubuntu plucky/main armhf poppler-data all 0.4.12-1 [2060 kB] 748s Get:40 http://ftpmaster.internal/ubuntu plucky/main armhf sgml-base all 1.31 [11.4 kB] 748s Get:41 http://ftpmaster.internal/ubuntu plucky/main armhf autoconf all 2.72-3 [382 kB] 748s Get:42 http://ftpmaster.internal/ubuntu plucky/main armhf autotools-dev all 20220109.1 [44.9 kB] 748s Get:43 http://ftpmaster.internal/ubuntu plucky/main armhf automake all 1:1.16.5-1.3ubuntu1 [558 kB] 749s Get:44 http://ftpmaster.internal/ubuntu plucky/main armhf autopoint all 0.22.5-2 [616 kB] 749s Get:45 http://ftpmaster.internal/ubuntu plucky/main armhf libtcl8.6 armhf 8.6.14+dfsg-1build1 [903 kB] 749s Get:46 http://ftpmaster.internal/ubuntu plucky/main armhf libxrender1 armhf 1:0.9.10-1.1build1 [16.0 kB] 749s Get:47 http://ftpmaster.internal/ubuntu plucky/main armhf libxft2 armhf 2.3.6-1build1 [37.4 kB] 749s Get:48 http://ftpmaster.internal/ubuntu plucky/main armhf libxss1 armhf 1:1.2.3-1build3 [6500 B] 749s Get:49 http://ftpmaster.internal/ubuntu plucky/main armhf libtk8.6 armhf 8.6.14-1build1 [681 kB] 749s Get:50 http://ftpmaster.internal/ubuntu plucky/main armhf tk8.6-blt2.5 armhf 2.5.3+dfsg-7build1 [525 kB] 749s Get:51 http://ftpmaster.internal/ubuntu plucky/main armhf blt armhf 2.5.3+dfsg-7build1 [4840 B] 749s Get:52 http://ftpmaster.internal/ubuntu plucky/main armhf libc-dev-bin armhf 2.40-1ubuntu3 [19.2 kB] 749s Get:53 http://ftpmaster.internal/ubuntu plucky/main armhf linux-libc-dev armhf 6.11.0-8.8 [1628 kB] 749s Get:54 http://ftpmaster.internal/ubuntu plucky/main armhf libcrypt-dev armhf 1:4.4.36-4build1 [120 kB] 749s Get:55 http://ftpmaster.internal/ubuntu plucky/main armhf rpcsvc-proto armhf 1.4.2-0ubuntu7 [62.2 kB] 749s Get:56 http://ftpmaster.internal/ubuntu plucky/main armhf libc6-dev armhf 2.40-1ubuntu3 [1370 kB] 749s Get:57 http://ftpmaster.internal/ubuntu plucky/main armhf libisl23 armhf 0.27-1 [546 kB] 749s Get:58 http://ftpmaster.internal/ubuntu plucky/main armhf libmpc3 armhf 1.3.1-1build2 [47.1 kB] 749s Get:59 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-14-arm-linux-gnueabihf armhf 14.2.0-7ubuntu1 [9219 kB] 749s Get:60 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-14 armhf 14.2.0-7ubuntu1 [1030 B] 749s Get:61 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-arm-linux-gnueabihf armhf 4:14.1.0-2ubuntu1 [5464 B] 749s Get:62 http://ftpmaster.internal/ubuntu plucky/main armhf cpp armhf 4:14.1.0-2ubuntu1 [22.4 kB] 749s Get:63 http://ftpmaster.internal/ubuntu plucky/main armhf libcc1-0 armhf 14.2.0-7ubuntu1 [43.3 kB] 749s Get:64 http://ftpmaster.internal/ubuntu plucky/main armhf libasan8 armhf 14.2.0-7ubuntu1 [2901 kB] 749s Get:65 http://ftpmaster.internal/ubuntu plucky/main armhf libubsan1 armhf 14.2.0-7ubuntu1 [1150 kB] 749s Get:66 http://ftpmaster.internal/ubuntu plucky/main armhf libgcc-14-dev armhf 14.2.0-7ubuntu1 [897 kB] 749s Get:67 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14-arm-linux-gnueabihf armhf 14.2.0-7ubuntu1 [18.0 MB] 750s Get:68 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14 armhf 14.2.0-7ubuntu1 [495 kB] 750s Get:69 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-arm-linux-gnueabihf armhf 4:14.1.0-2ubuntu1 [1222 B] 750s Get:70 http://ftpmaster.internal/ubuntu plucky/main armhf gcc armhf 4:14.1.0-2ubuntu1 [5002 B] 750s Get:71 http://ftpmaster.internal/ubuntu plucky/main armhf libstdc++-14-dev armhf 14.2.0-7ubuntu1 [2567 kB] 750s Get:72 http://ftpmaster.internal/ubuntu plucky/main armhf g++-14-arm-linux-gnueabihf armhf 14.2.0-7ubuntu1 [10.5 MB] 751s Get:73 http://ftpmaster.internal/ubuntu plucky/main armhf g++-14 armhf 14.2.0-7ubuntu1 [19.8 kB] 751s Get:74 http://ftpmaster.internal/ubuntu plucky/main armhf g++-arm-linux-gnueabihf armhf 4:14.1.0-2ubuntu1 [968 B] 751s Get:75 http://ftpmaster.internal/ubuntu plucky/main armhf g++ armhf 4:14.1.0-2ubuntu1 [1084 B] 751s Get:76 http://ftpmaster.internal/ubuntu plucky/main armhf build-essential armhf 12.10ubuntu1 [4928 B] 751s Get:77 http://ftpmaster.internal/ubuntu plucky/universe armhf bwa armhf 0.7.17-7 [194 kB] 751s Get:78 http://ftpmaster.internal/ubuntu plucky/universe armhf libargtable2-0 armhf 13-2 [12.2 kB] 751s Get:79 http://ftpmaster.internal/ubuntu plucky/universe armhf clustalo armhf 1.2.4-8build1 [249 kB] 751s Get:80 http://ftpmaster.internal/ubuntu plucky/main armhf libdebhelper-perl all 13.20ubuntu1 [94.2 kB] 751s Get:81 http://ftpmaster.internal/ubuntu plucky/main armhf libtool all 2.4.7-7build1 [166 kB] 751s Get:82 http://ftpmaster.internal/ubuntu plucky/main armhf dh-autoreconf all 20 [16.1 kB] 751s Get:83 http://ftpmaster.internal/ubuntu plucky/main armhf libarchive-zip-perl all 1.68-1 [90.2 kB] 751s Get:84 http://ftpmaster.internal/ubuntu plucky/main armhf libfile-stripnondeterminism-perl all 1.14.0-1 [20.1 kB] 751s Get:85 http://ftpmaster.internal/ubuntu plucky/main armhf dh-strip-nondeterminism all 1.14.0-1 [5058 B] 751s Get:86 http://ftpmaster.internal/ubuntu plucky/main armhf debugedit armhf 1:5.0-6 [42.3 kB] 751s Get:87 http://ftpmaster.internal/ubuntu plucky/main armhf dwz armhf 0.15-1build6 [116 kB] 751s Get:88 http://ftpmaster.internal/ubuntu plucky/main armhf gettext armhf 0.22.5-2 [995 kB] 751s Get:89 http://ftpmaster.internal/ubuntu plucky/main armhf intltool-debian all 0.35.0+20060710.6 [23.2 kB] 751s Get:90 http://ftpmaster.internal/ubuntu plucky/main armhf po-debconf all 1.0.21+nmu1 [233 kB] 751s Get:91 http://ftpmaster.internal/ubuntu plucky/main armhf debhelper all 13.20ubuntu1 [893 kB] 751s Get:92 http://ftpmaster.internal/ubuntu plucky/universe armhf dh-python all 6.20240824 [112 kB] 751s Get:93 http://ftpmaster.internal/ubuntu plucky/universe armhf dialign armhf 2.2.1-13 [156 kB] 751s Get:94 http://ftpmaster.internal/ubuntu plucky/universe armhf libcifpp-data all 5.0.7.1-3build1 [450 kB] 751s Get:95 http://ftpmaster.internal/ubuntu plucky/universe armhf libcifpp5 armhf 5.0.7.1-3build1 [852 kB] 751s Get:96 http://ftpmaster.internal/ubuntu plucky/universe armhf dssp armhf 4.2.2-2 [626 kB] 751s Get:97 http://ftpmaster.internal/ubuntu plucky/universe armhf fonts-lmodern all 2.005-1 [4799 kB] 751s Get:98 http://ftpmaster.internal/ubuntu plucky/universe armhf fonts-lyx all 2.4.1-2 [171 kB] 751s Get:99 http://ftpmaster.internal/ubuntu plucky/main armhf libgs-common all 10.03.1~dfsg1-0ubuntu2 [175 kB] 751s Get:100 http://ftpmaster.internal/ubuntu plucky/main armhf libgs10-common all 10.03.1~dfsg1-0ubuntu2 [488 kB] 751s Get:101 http://ftpmaster.internal/ubuntu plucky/main armhf libavahi-common-data armhf 0.8-13ubuntu6 [29.7 kB] 751s Get:102 http://ftpmaster.internal/ubuntu plucky/main armhf libavahi-common3 armhf 0.8-13ubuntu6 [20.2 kB] 751s Get:103 http://ftpmaster.internal/ubuntu plucky/main armhf libavahi-client3 armhf 0.8-13ubuntu6 [24.2 kB] 751s Get:104 http://ftpmaster.internal/ubuntu plucky/main armhf libcups2t64 armhf 2.4.10-1ubuntu2 [239 kB] 752s Get:105 http://ftpmaster.internal/ubuntu plucky/main armhf libidn12 armhf 1.42-2 [55.1 kB] 752s Get:106 http://ftpmaster.internal/ubuntu plucky/main armhf libijs-0.35 armhf 0.35-15.1build1 [13.5 kB] 752s Get:107 http://ftpmaster.internal/ubuntu plucky/main armhf libjbig2dec0 armhf 0.20-1build3 [57.6 kB] 752s Get:108 http://ftpmaster.internal/ubuntu plucky/main armhf libpaper1 armhf 1.1.29build1 [12.6 kB] 752s Get:109 http://ftpmaster.internal/ubuntu plucky/main armhf libice6 armhf 2:1.0.10-1build3 [35.4 kB] 752s Get:110 http://ftpmaster.internal/ubuntu plucky/main armhf libsm6 armhf 2:1.2.3-1build3 [14.1 kB] 752s Get:111 http://ftpmaster.internal/ubuntu plucky/main armhf libxt6t64 armhf 1:1.2.1-1.2build1 [145 kB] 752s Get:112 http://ftpmaster.internal/ubuntu plucky/main armhf libgs10 armhf 10.03.1~dfsg1-0ubuntu2 [4182 kB] 752s Get:113 http://ftpmaster.internal/ubuntu plucky/main armhf ghostscript armhf 10.03.1~dfsg1-0ubuntu2 [43.4 kB] 752s Get:114 http://ftpmaster.internal/ubuntu plucky/universe armhf libnetpbm11t64 armhf 2:11.07.00-2 [97.5 kB] 752s Get:115 http://ftpmaster.internal/ubuntu plucky/universe armhf netpbm armhf 2:11.07.00-2 [1927 kB] 752s Get:116 http://ftpmaster.internal/ubuntu plucky/universe armhf tex-common all 6.18 [32.8 kB] 752s Get:117 http://ftpmaster.internal/ubuntu plucky/main armhf libpaper-utils armhf 1.1.29build1 [8184 B] 752s Get:118 http://ftpmaster.internal/ubuntu plucky/main armhf libkpathsea6 armhf 2024.20240313.70630+ds-4 [58.7 kB] 752s Get:119 http://ftpmaster.internal/ubuntu plucky/main armhf libptexenc1 armhf 2024.20240313.70630+ds-4 [37.7 kB] 752s Get:120 http://ftpmaster.internal/ubuntu plucky/main armhf libsynctex2 armhf 2024.20240313.70630+ds-4 [48.0 kB] 752s Get:121 http://ftpmaster.internal/ubuntu plucky/main armhf libtexlua53-5 armhf 2024.20240313.70630+ds-4 [98.0 kB] 752s Get:122 http://ftpmaster.internal/ubuntu plucky/main armhf t1utils armhf 1.41-4build3 [51.8 kB] 752s Get:123 http://ftpmaster.internal/ubuntu plucky/main armhf libpixman-1-0 armhf 0.42.2-1build1 [193 kB] 752s Get:124 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-render0 armhf 1.17.0-2 [15.3 kB] 752s Get:125 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-shm0 armhf 1.17.0-2 [5774 B] 752s Get:126 http://ftpmaster.internal/ubuntu plucky/main armhf libcairo2 armhf 1.18.2-2 [484 kB] 752s Get:127 http://ftpmaster.internal/ubuntu plucky/main armhf libgraphite2-3 armhf 1.3.14-2ubuntu1 [64.8 kB] 752s Get:128 http://ftpmaster.internal/ubuntu plucky/main armhf libharfbuzz0b armhf 9.0.0-1 [462 kB] 752s Get:129 http://ftpmaster.internal/ubuntu plucky/universe armhf libmpfi0 armhf 1.5.4+ds-3 [27.8 kB] 752s Get:130 http://ftpmaster.internal/ubuntu plucky/universe armhf libpotrace0 armhf 1.16-2build1 [15.2 kB] 752s Get:131 http://ftpmaster.internal/ubuntu plucky/universe armhf libteckit0 armhf 2.5.12+ds1-1 [323 kB] 752s Get:132 http://ftpmaster.internal/ubuntu plucky/main armhf libxmu6 armhf 2:1.1.3-3build2 [40.4 kB] 752s Get:133 http://ftpmaster.internal/ubuntu plucky/main armhf libxpm4 armhf 1:3.5.17-1build2 [30.1 kB] 752s Get:134 http://ftpmaster.internal/ubuntu plucky/main armhf libxaw7 armhf 2:1.0.14-1build2 [153 kB] 752s Get:135 http://ftpmaster.internal/ubuntu plucky/main armhf libxi6 armhf 2:1.8.2-1 [26.5 kB] 752s Get:136 http://ftpmaster.internal/ubuntu plucky/universe armhf libzzip-0-13t64 armhf 0.13.72+dfsg.1-1.2build1 [24.4 kB] 752s Get:137 http://ftpmaster.internal/ubuntu plucky/universe armhf texlive-binaries armhf 2024.20240313.70630+ds-4 [7092 kB] 753s Get:138 http://ftpmaster.internal/ubuntu plucky/main armhf xdg-utils all 1.2.1-0ubuntu1 [67.5 kB] 753s Get:139 http://ftpmaster.internal/ubuntu plucky/universe armhf texlive-base all 2024.20240706-1 [22.5 MB] 753s Get:140 http://ftpmaster.internal/ubuntu plucky/main armhf hicolor-icon-theme all 0.18-1 [13.5 kB] 753s Get:141 http://ftpmaster.internal/ubuntu plucky/universe armhf imagemagick-6.q16 armhf 8:6.9.13.12+dfsg1-1build1 [254 kB] 753s Get:142 http://ftpmaster.internal/ubuntu plucky/universe armhf imagemagick armhf 8:6.9.13.12+dfsg1-1build1 [14.2 kB] 753s Get:143 http://ftpmaster.internal/ubuntu plucky/universe armhf hevea armhf 2.36-2 [1938 kB] 754s Get:144 http://ftpmaster.internal/ubuntu plucky/universe armhf libapache-pom-java all 29-2 [5284 B] 754s Get:145 http://ftpmaster.internal/ubuntu plucky/main armhf libblas3 armhf 3.12.0-3build2 [126 kB] 754s Get:146 http://ftpmaster.internal/ubuntu plucky/universe armhf libcommons-parent-java all 56-1 [10.7 kB] 754s Get:147 http://ftpmaster.internal/ubuntu plucky/universe armhf libcommons-logging-java all 1.3.0-1ubuntu1 [63.8 kB] 754s Get:148 http://ftpmaster.internal/ubuntu plucky/main armhf libexpat1-dev armhf 2.6.2-2 [121 kB] 754s Get:149 http://ftpmaster.internal/ubuntu plucky/main armhf libgfortran5 armhf 14.2.0-7ubuntu1 [311 kB] 754s Get:150 http://ftpmaster.internal/ubuntu plucky/main armhf libimagequant0 armhf 2.18.0-1build1 [31.1 kB] 754s Get:151 http://ftpmaster.internal/ubuntu plucky/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 754s Get:152 http://ftpmaster.internal/ubuntu plucky/universe armhf libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 754s Get:153 http://ftpmaster.internal/ubuntu plucky/main armhf libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 754s Get:154 http://ftpmaster.internal/ubuntu plucky/main armhf libjs-sphinxdoc all 7.4.7-3 [157 kB] 754s Get:155 http://ftpmaster.internal/ubuntu plucky/main armhf liblapack3 armhf 3.12.0-3build2 [2086 kB] 754s Get:156 http://ftpmaster.internal/ubuntu plucky/universe armhf liblbfgsb0 armhf 3.0+dfsg.4-1build1 [27.4 kB] 754s Get:157 http://ftpmaster.internal/ubuntu plucky/universe armhf libmbedcrypto7t64 armhf 2.28.8-1 [182 kB] 754s Get:158 http://ftpmaster.internal/ubuntu plucky/universe armhf libmbedx509-1t64 armhf 2.28.8-1 [43.0 kB] 754s Get:159 http://ftpmaster.internal/ubuntu plucky/universe armhf libmbedtls14t64 armhf 2.28.8-1 [77.2 kB] 754s Get:160 http://ftpmaster.internal/ubuntu plucky/main armhf mysql-common all 5.8+1.1.1 [6800 B] 754s Get:161 http://ftpmaster.internal/ubuntu plucky/main armhf libmysqlclient21 armhf 8.0.39-1 [1234 kB] 754s Get:162 http://ftpmaster.internal/ubuntu plucky/main armhf libpython3.12t64 armhf 3.12.7-1 [2076 kB] 754s Get:163 http://ftpmaster.internal/ubuntu plucky/main armhf zlib1g-dev armhf 1:1.3.dfsg+really1.3.1-1ubuntu1 [880 kB] 754s Get:164 http://ftpmaster.internal/ubuntu plucky/main armhf libpython3.12-dev armhf 3.12.7-1 [4344 kB] 754s Get:165 http://ftpmaster.internal/ubuntu plucky/main armhf libpython3-dev armhf 3.12.6-0ubuntu1 [10.2 kB] 754s Get:166 http://ftpmaster.internal/ubuntu plucky/main armhf libpython3-all-dev armhf 3.12.6-0ubuntu1 [914 B] 754s Get:167 http://ftpmaster.internal/ubuntu plucky/universe armhf libqhull-r8.0 armhf 2020.2-6build1 [173 kB] 754s Get:168 http://ftpmaster.internal/ubuntu plucky/main armhf libraqm0 armhf 0.10.1-1build1 [12.4 kB] 754s Get:169 http://ftpmaster.internal/ubuntu plucky/main armhf libxslt1.1 armhf 1.1.39-0exp1ubuntu1 [150 kB] 754s Get:170 http://ftpmaster.internal/ubuntu plucky/universe armhf mafft armhf 7.505-1 [928 kB] 754s Get:171 http://ftpmaster.internal/ubuntu plucky/universe armhf ncbi-data all 6.1.20170106+dfsg2-3 [3966 kB] 754s Get:172 http://ftpmaster.internal/ubuntu plucky/universe armhf ncbi-blast+ armhf 2.16.0+ds-6 [14.8 MB] 755s Get:173 http://ftpmaster.internal/ubuntu plucky/universe armhf phylip armhf 1:3.697+dfsg-4build1 [876 kB] 755s Get:174 http://ftpmaster.internal/ubuntu plucky/universe armhf prank armhf 0.0.170427+dfsg-3 [340 kB] 755s Get:175 http://ftpmaster.internal/ubuntu plucky/universe armhf preview-latex-style all 13.2-1 [347 kB] 755s Get:176 http://ftpmaster.internal/ubuntu plucky/universe armhf probcons armhf 1.12-14 [120 kB] 755s Get:177 http://ftpmaster.internal/ubuntu plucky/universe armhf python-biopython-doc all 1.83+dfsg1-3 [17.4 MB] 756s Get:178 http://ftpmaster.internal/ubuntu plucky/universe armhf python-matplotlib-data all 3.8.3-3 [2928 kB] 756s Get:179 http://ftpmaster.internal/ubuntu plucky/main armhf python3-all armhf 3.12.6-0ubuntu1 [886 B] 756s Get:180 http://ftpmaster.internal/ubuntu plucky/main armhf python3.12-dev armhf 3.12.7-1 [504 kB] 756s Get:181 http://ftpmaster.internal/ubuntu plucky/main armhf python3-dev armhf 3.12.6-0ubuntu1 [26.7 kB] 756s Get:182 http://ftpmaster.internal/ubuntu plucky/main armhf python3-all-dev armhf 3.12.6-0ubuntu1 [908 B] 756s Get:183 http://ftpmaster.internal/ubuntu plucky/main armhf python3-appdirs all 1.4.4-4 [10.9 kB] 756s Get:184 http://ftpmaster.internal/ubuntu plucky/main armhf python3-numpy armhf 1:1.26.4+ds-11build1 [3570 kB] 756s Get:185 http://ftpmaster.internal/ubuntu plucky/main armhf python3.12-tk armhf 3.12.7-1 [112 kB] 756s Get:186 http://ftpmaster.internal/ubuntu plucky/main armhf python3-tk armhf 3.12.6-1ubuntu1 [9806 B] 756s Get:187 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-pil.imagetk armhf 10.4.0-1ubuntu1 [8848 B] 756s Get:188 http://ftpmaster.internal/ubuntu plucky/main armhf python3-pil armhf 10.4.0-1ubuntu1 [428 kB] 756s Get:189 http://ftpmaster.internal/ubuntu plucky/main armhf python3-cairo armhf 1.26.1-2 [114 kB] 756s Get:190 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-freetype all 2.4.0-2 [81.3 kB] 756s Get:191 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-rlpycairo all 0.3.0-3 [9130 B] 756s Get:192 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-reportlab all 4.2.2-1 [1130 kB] 756s Get:193 http://ftpmaster.internal/ubuntu plucky/main armhf xml-core all 0.19 [20.3 kB] 756s Get:194 http://ftpmaster.internal/ubuntu plucky/universe armhf w3c-sgml-lib all 1.3-3 [280 kB] 756s Get:195 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-biopython armhf 1.83+dfsg1-3 [1627 kB] 756s Get:196 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-biopython-sql all 1.83+dfsg1-3 [25.7 kB] 756s Get:197 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-brotli armhf 1.1.0-2build2 [321 kB] 756s Get:198 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-contourpy armhf 1.2.1-1 [187 kB] 756s Get:199 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-cycler all 0.12.1-1 [9716 B] 756s Get:200 http://ftpmaster.internal/ubuntu plucky/main armhf python3-six all 1.16.0-7 [13.1 kB] 756s Get:201 http://ftpmaster.internal/ubuntu plucky/main armhf python3-dateutil all 2.9.0-2 [80.3 kB] 756s Get:202 http://ftpmaster.internal/ubuntu plucky/main armhf python3-decorator all 5.1.1-5 [10.1 kB] 756s Get:203 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-scipy armhf 1.13.1-3 [16.4 MB] 757s Get:204 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-ufolib2 all 0.16.0+dfsg1-1 [33.5 kB] 757s Get:205 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-mpmath all 1.3.0-1 [425 kB] 757s Get:206 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-sympy all 1.13.1-1 [4228 kB] 757s Get:207 http://ftpmaster.internal/ubuntu plucky/main armhf python3-tz all 2024.1-2 [31.4 kB] 757s Get:208 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-fs all 2.4.16-4 [91.3 kB] 757s Get:209 http://ftpmaster.internal/ubuntu plucky/main armhf python3-lxml armhf 5.3.0-1 [1234 kB] 758s Get:210 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-lz4 armhf 4.0.2+dfsg-1build4 [24.8 kB] 758s Get:211 http://ftpmaster.internal/ubuntu plucky/universe armhf unicode-data all 15.1.0-1 [8878 kB] 758s Get:212 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-fonttools armhf 4.46.0-1build2 [1402 kB] 758s Get:213 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-isodate all 0.6.1-3 [24.3 kB] 758s Get:214 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-kiwisolver armhf 1.4.5-1 [56.3 kB] 758s Get:215 http://ftpmaster.internal/ubuntu plucky/main armhf python3-packaging all 24.1-1 [41.4 kB] 758s Get:216 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-matplotlib armhf 3.8.3-3 [4500 kB] 758s Get:217 http://ftpmaster.internal/ubuntu plucky/main armhf python3-msgpack armhf 1.0.3-3build2 [76.1 kB] 758s Get:218 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-mmtf all 1.1.3-1 [16.2 kB] 758s Get:219 http://ftpmaster.internal/ubuntu plucky/main armhf python3-mysqldb armhf 1.4.6-2build3 [44.2 kB] 758s Get:220 http://ftpmaster.internal/ubuntu plucky/main armhf python3-networkx all 3.2.1-4ubuntu1 [11.5 MB] 758s Get:221 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-rdflib all 7.0.0-1 [405 kB] 758s Get:222 http://ftpmaster.internal/ubuntu plucky/universe armhf t-coffee armhf 13.45.0.4846264+really13.41.0.28bdc39+dfsg-1 [968 kB] 758s Get:223 http://ftpmaster.internal/ubuntu plucky/universe armhf texlive-fonts-recommended all 2024.20240706-1 [4973 kB] 759s Get:224 http://ftpmaster.internal/ubuntu plucky/universe armhf texlive-latex-base all 2024.20240706-1 [1256 kB] 759s Get:225 http://ftpmaster.internal/ubuntu plucky/universe armhf libfontbox-java all 1:1.8.16-5 [208 kB] 759s Get:226 http://ftpmaster.internal/ubuntu plucky/universe armhf libpdfbox-java all 1:1.8.16-5 [5521 kB] 759s Get:227 http://ftpmaster.internal/ubuntu plucky/universe armhf texlive-latex-recommended all 2024.20240706-1 [8830 kB] 759s Get:228 http://ftpmaster.internal/ubuntu plucky/universe armhf texlive-pictures all 2024.20240706-1 [17.0 MB] 760s Get:229 http://ftpmaster.internal/ubuntu plucky/universe armhf texlive-latex-extra all 2024.20240706-2 [19.6 MB] 760s Get:230 http://ftpmaster.internal/ubuntu plucky/universe armhf wise-data all 2.4.1-25 [83.0 kB] 760s Get:231 http://ftpmaster.internal/ubuntu plucky/universe armhf wise armhf 2.4.1-25 [917 kB] 760s Get:232 http://ftpmaster.internal/ubuntu plucky/universe armhf fasttree armhf 2.1.11-2 [162 kB] 761s Preconfiguring packages ... 762s Fetched 300 MB in 13s (22.5 MB/s) 762s Selecting previously unselected package m4. 762s (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 ... 59541 files and directories currently installed.) 762s Preparing to unpack .../000-m4_1.4.19-4build1_armhf.deb ... 762s Unpacking m4 (1.4.19-4build1) ... 762s Selecting previously unselected package flex. 762s Preparing to unpack .../001-flex_2.6.4-8.2build1_armhf.deb ... 762s Unpacking flex (2.6.4-8.2build1) ... 762s Selecting previously unselected package libgomp1:armhf. 762s Preparing to unpack .../002-libgomp1_14.2.0-7ubuntu1_armhf.deb ... 762s Unpacking libgomp1:armhf (14.2.0-7ubuntu1) ... 762s Selecting previously unselected package libfftw3-double3:armhf. 762s Preparing to unpack .../003-libfftw3-double3_3.3.10-1ubuntu4_armhf.deb ... 762s Unpacking libfftw3-double3:armhf (3.3.10-1ubuntu4) ... 762s Selecting previously unselected package libfreetype6:armhf. 762s Preparing to unpack .../004-libfreetype6_2.13.3+dfsg-1_armhf.deb ... 762s Unpacking libfreetype6:armhf (2.13.3+dfsg-1) ... 762s Selecting previously unselected package fonts-dejavu-mono. 762s Preparing to unpack .../005-fonts-dejavu-mono_2.37-8_all.deb ... 762s Unpacking fonts-dejavu-mono (2.37-8) ... 762s Selecting previously unselected package fonts-dejavu-core. 762s Preparing to unpack .../006-fonts-dejavu-core_2.37-8_all.deb ... 762s Unpacking fonts-dejavu-core (2.37-8) ... 762s Selecting previously unselected package libfontenc1:armhf. 762s Preparing to unpack .../007-libfontenc1_1%3a1.1.8-1build1_armhf.deb ... 762s Unpacking libfontenc1:armhf (1:1.1.8-1build1) ... 762s Selecting previously unselected package x11-common. 762s Preparing to unpack .../008-x11-common_1%3a7.7+23ubuntu3_all.deb ... 762s Unpacking x11-common (1:7.7+23ubuntu3) ... 762s Selecting previously unselected package xfonts-encodings. 762s Preparing to unpack .../009-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 762s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 762s Selecting previously unselected package xfonts-utils. 762s Preparing to unpack .../010-xfonts-utils_1%3a7.7+7_armhf.deb ... 762s Unpacking xfonts-utils (1:7.7+7) ... 762s Selecting previously unselected package fonts-urw-base35. 762s Preparing to unpack .../011-fonts-urw-base35_20200910-8_all.deb ... 763s Unpacking fonts-urw-base35 (20200910-8) ... 763s Selecting previously unselected package fontconfig-config. 763s Preparing to unpack .../012-fontconfig-config_2.15.0-1.1ubuntu2_armhf.deb ... 763s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 763s Selecting previously unselected package libfontconfig1:armhf. 763s Preparing to unpack .../013-libfontconfig1_2.15.0-1.1ubuntu2_armhf.deb ... 763s Unpacking libfontconfig1:armhf (2.15.0-1.1ubuntu2) ... 763s Selecting previously unselected package libsharpyuv0:armhf. 763s Preparing to unpack .../014-libsharpyuv0_1.4.0-0.1_armhf.deb ... 763s Unpacking libsharpyuv0:armhf (1.4.0-0.1) ... 763s Selecting previously unselected package libaom3:armhf. 763s Preparing to unpack .../015-libaom3_3.9.1-1_armhf.deb ... 763s Unpacking libaom3:armhf (3.9.1-1) ... 763s Selecting previously unselected package libheif-plugin-aomdec:armhf. 763s Preparing to unpack .../016-libheif-plugin-aomdec_1.18.1-2_armhf.deb ... 763s Unpacking libheif-plugin-aomdec:armhf (1.18.1-2) ... 763s Selecting previously unselected package libde265-0:armhf. 763s Preparing to unpack .../017-libde265-0_1.0.15-1build4_armhf.deb ... 763s Unpacking libde265-0:armhf (1.0.15-1build4) ... 763s Selecting previously unselected package libheif-plugin-libde265:armhf. 763s Preparing to unpack .../018-libheif-plugin-libde265_1.18.1-2_armhf.deb ... 763s Unpacking libheif-plugin-libde265:armhf (1.18.1-2) ... 763s Selecting previously unselected package libheif1:armhf. 763s Preparing to unpack .../019-libheif1_1.18.1-2_armhf.deb ... 763s Unpacking libheif1:armhf (1.18.1-2) ... 764s Selecting previously unselected package libjbig0:armhf. 764s Preparing to unpack .../020-libjbig0_2.1-6.1ubuntu2_armhf.deb ... 764s Unpacking libjbig0:armhf (2.1-6.1ubuntu2) ... 764s Selecting previously unselected package libjpeg-turbo8:armhf. 764s Preparing to unpack .../021-libjpeg-turbo8_2.1.5-2ubuntu2_armhf.deb ... 764s Unpacking libjpeg-turbo8:armhf (2.1.5-2ubuntu2) ... 764s Selecting previously unselected package libjpeg8:armhf. 764s Preparing to unpack .../022-libjpeg8_8c-2ubuntu11_armhf.deb ... 764s Unpacking libjpeg8:armhf (8c-2ubuntu11) ... 764s Selecting previously unselected package liblcms2-2:armhf. 764s Preparing to unpack .../023-liblcms2-2_2.14-2build1_armhf.deb ... 764s Unpacking liblcms2-2:armhf (2.14-2build1) ... 764s Selecting previously unselected package liblqr-1-0:armhf. 764s Preparing to unpack .../024-liblqr-1-0_0.4.2-2.1build2_armhf.deb ... 764s Unpacking liblqr-1-0:armhf (0.4.2-2.1build2) ... 764s Selecting previously unselected package libltdl7:armhf. 764s Preparing to unpack .../025-libltdl7_2.4.7-7build1_armhf.deb ... 764s Unpacking libltdl7:armhf (2.4.7-7build1) ... 764s Selecting previously unselected package libopenjp2-7:armhf. 764s Preparing to unpack .../026-libopenjp2-7_2.5.0-2ubuntu1_armhf.deb ... 764s Unpacking libopenjp2-7:armhf (2.5.0-2ubuntu1) ... 764s Selecting previously unselected package libraw23t64:armhf. 764s Preparing to unpack .../027-libraw23t64_0.21.2-2.1build1_armhf.deb ... 764s Unpacking libraw23t64:armhf (0.21.2-2.1build1) ... 764s Selecting previously unselected package libdeflate0:armhf. 764s Preparing to unpack .../028-libdeflate0_1.21-1_armhf.deb ... 764s Unpacking libdeflate0:armhf (1.21-1) ... 764s Selecting previously unselected package liblerc4:armhf. 764s Preparing to unpack .../029-liblerc4_4.0.0+ds-4ubuntu2_armhf.deb ... 764s Unpacking liblerc4:armhf (4.0.0+ds-4ubuntu2) ... 764s Selecting previously unselected package libwebp7:armhf. 764s Preparing to unpack .../030-libwebp7_1.4.0-0.1_armhf.deb ... 764s Unpacking libwebp7:armhf (1.4.0-0.1) ... 764s Selecting previously unselected package libtiff6:armhf. 764s Preparing to unpack .../031-libtiff6_4.5.1+git230720-4ubuntu4_armhf.deb ... 764s Unpacking libtiff6:armhf (4.5.1+git230720-4ubuntu4) ... 764s Selecting previously unselected package libwebpdemux2:armhf. 764s Preparing to unpack .../032-libwebpdemux2_1.4.0-0.1_armhf.deb ... 764s Unpacking libwebpdemux2:armhf (1.4.0-0.1) ... 764s Selecting previously unselected package libwebpmux3:armhf. 764s Preparing to unpack .../033-libwebpmux3_1.4.0-0.1_armhf.deb ... 764s Unpacking libwebpmux3:armhf (1.4.0-0.1) ... 764s Selecting previously unselected package imagemagick-6-common. 764s Preparing to unpack .../034-imagemagick-6-common_8%3a6.9.13.12+dfsg1-1build1_all.deb ... 764s Unpacking imagemagick-6-common (8:6.9.13.12+dfsg1-1build1) ... 764s Selecting previously unselected package libmagickcore-6.q16-7t64:armhf. 764s Preparing to unpack .../035-libmagickcore-6.q16-7t64_8%3a6.9.13.12+dfsg1-1build1_armhf.deb ... 764s Unpacking libmagickcore-6.q16-7t64:armhf (8:6.9.13.12+dfsg1-1build1) ... 764s Selecting previously unselected package libmagickwand-6.q16-7t64:armhf. 764s Preparing to unpack .../036-libmagickwand-6.q16-7t64_8%3a6.9.13.12+dfsg1-1build1_armhf.deb ... 764s Unpacking libmagickwand-6.q16-7t64:armhf (8:6.9.13.12+dfsg1-1build1) ... 764s Selecting previously unselected package poppler-data. 765s Preparing to unpack .../037-poppler-data_0.4.12-1_all.deb ... 765s Unpacking poppler-data (0.4.12-1) ... 765s Selecting previously unselected package sgml-base. 765s Preparing to unpack .../038-sgml-base_1.31_all.deb ... 765s Unpacking sgml-base (1.31) ... 765s Selecting previously unselected package autoconf. 765s Preparing to unpack .../039-autoconf_2.72-3_all.deb ... 765s Unpacking autoconf (2.72-3) ... 765s Selecting previously unselected package autotools-dev. 765s Preparing to unpack .../040-autotools-dev_20220109.1_all.deb ... 765s Unpacking autotools-dev (20220109.1) ... 765s Selecting previously unselected package automake. 765s Preparing to unpack .../041-automake_1%3a1.16.5-1.3ubuntu1_all.deb ... 765s Unpacking automake (1:1.16.5-1.3ubuntu1) ... 765s Selecting previously unselected package autopoint. 765s Preparing to unpack .../042-autopoint_0.22.5-2_all.deb ... 765s Unpacking autopoint (0.22.5-2) ... 765s Selecting previously unselected package libtcl8.6:armhf. 765s Preparing to unpack .../043-libtcl8.6_8.6.14+dfsg-1build1_armhf.deb ... 765s Unpacking libtcl8.6:armhf (8.6.14+dfsg-1build1) ... 765s Selecting previously unselected package libxrender1:armhf. 765s Preparing to unpack .../044-libxrender1_1%3a0.9.10-1.1build1_armhf.deb ... 765s Unpacking libxrender1:armhf (1:0.9.10-1.1build1) ... 765s Selecting previously unselected package libxft2:armhf. 765s Preparing to unpack .../045-libxft2_2.3.6-1build1_armhf.deb ... 765s Unpacking libxft2:armhf (2.3.6-1build1) ... 765s Selecting previously unselected package libxss1:armhf. 765s Preparing to unpack .../046-libxss1_1%3a1.2.3-1build3_armhf.deb ... 765s Unpacking libxss1:armhf (1:1.2.3-1build3) ... 765s Selecting previously unselected package libtk8.6:armhf. 765s Preparing to unpack .../047-libtk8.6_8.6.14-1build1_armhf.deb ... 765s Unpacking libtk8.6:armhf (8.6.14-1build1) ... 765s Selecting previously unselected package tk8.6-blt2.5. 765s Preparing to unpack .../048-tk8.6-blt2.5_2.5.3+dfsg-7build1_armhf.deb ... 765s Unpacking tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 765s Selecting previously unselected package blt. 765s Preparing to unpack .../049-blt_2.5.3+dfsg-7build1_armhf.deb ... 765s Unpacking blt (2.5.3+dfsg-7build1) ... 765s Selecting previously unselected package libc-dev-bin. 766s Preparing to unpack .../050-libc-dev-bin_2.40-1ubuntu3_armhf.deb ... 766s Unpacking libc-dev-bin (2.40-1ubuntu3) ... 766s Selecting previously unselected package linux-libc-dev:armhf. 766s Preparing to unpack .../051-linux-libc-dev_6.11.0-8.8_armhf.deb ... 766s Unpacking linux-libc-dev:armhf (6.11.0-8.8) ... 766s Selecting previously unselected package libcrypt-dev:armhf. 766s Preparing to unpack .../052-libcrypt-dev_1%3a4.4.36-4build1_armhf.deb ... 766s Unpacking libcrypt-dev:armhf (1:4.4.36-4build1) ... 766s Selecting previously unselected package rpcsvc-proto. 766s Preparing to unpack .../053-rpcsvc-proto_1.4.2-0ubuntu7_armhf.deb ... 766s Unpacking rpcsvc-proto (1.4.2-0ubuntu7) ... 766s Selecting previously unselected package libc6-dev:armhf. 766s Preparing to unpack .../054-libc6-dev_2.40-1ubuntu3_armhf.deb ... 766s Unpacking libc6-dev:armhf (2.40-1ubuntu3) ... 766s Selecting previously unselected package libisl23:armhf. 766s Preparing to unpack .../055-libisl23_0.27-1_armhf.deb ... 766s Unpacking libisl23:armhf (0.27-1) ... 766s Selecting previously unselected package libmpc3:armhf. 766s Preparing to unpack .../056-libmpc3_1.3.1-1build2_armhf.deb ... 766s Unpacking libmpc3:armhf (1.3.1-1build2) ... 766s Selecting previously unselected package cpp-14-arm-linux-gnueabihf. 766s Preparing to unpack .../057-cpp-14-arm-linux-gnueabihf_14.2.0-7ubuntu1_armhf.deb ... 766s Unpacking cpp-14-arm-linux-gnueabihf (14.2.0-7ubuntu1) ... 767s Selecting previously unselected package cpp-14. 767s Preparing to unpack .../058-cpp-14_14.2.0-7ubuntu1_armhf.deb ... 767s Unpacking cpp-14 (14.2.0-7ubuntu1) ... 767s Selecting previously unselected package cpp-arm-linux-gnueabihf. 767s Preparing to unpack .../059-cpp-arm-linux-gnueabihf_4%3a14.1.0-2ubuntu1_armhf.deb ... 767s Unpacking cpp-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 767s Selecting previously unselected package cpp. 767s Preparing to unpack .../060-cpp_4%3a14.1.0-2ubuntu1_armhf.deb ... 767s Unpacking cpp (4:14.1.0-2ubuntu1) ... 767s Selecting previously unselected package libcc1-0:armhf. 767s Preparing to unpack .../061-libcc1-0_14.2.0-7ubuntu1_armhf.deb ... 767s Unpacking libcc1-0:armhf (14.2.0-7ubuntu1) ... 767s Selecting previously unselected package libasan8:armhf. 767s Preparing to unpack .../062-libasan8_14.2.0-7ubuntu1_armhf.deb ... 767s Unpacking libasan8:armhf (14.2.0-7ubuntu1) ... 767s Selecting previously unselected package libubsan1:armhf. 767s Preparing to unpack .../063-libubsan1_14.2.0-7ubuntu1_armhf.deb ... 767s Unpacking libubsan1:armhf (14.2.0-7ubuntu1) ... 767s Selecting previously unselected package libgcc-14-dev:armhf. 767s Preparing to unpack .../064-libgcc-14-dev_14.2.0-7ubuntu1_armhf.deb ... 767s Unpacking libgcc-14-dev:armhf (14.2.0-7ubuntu1) ... 767s Selecting previously unselected package gcc-14-arm-linux-gnueabihf. 767s Preparing to unpack .../065-gcc-14-arm-linux-gnueabihf_14.2.0-7ubuntu1_armhf.deb ... 767s Unpacking gcc-14-arm-linux-gnueabihf (14.2.0-7ubuntu1) ... 768s Selecting previously unselected package gcc-14. 768s Preparing to unpack .../066-gcc-14_14.2.0-7ubuntu1_armhf.deb ... 768s Unpacking gcc-14 (14.2.0-7ubuntu1) ... 768s Selecting previously unselected package gcc-arm-linux-gnueabihf. 768s Preparing to unpack .../067-gcc-arm-linux-gnueabihf_4%3a14.1.0-2ubuntu1_armhf.deb ... 768s Unpacking gcc-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 768s Selecting previously unselected package gcc. 768s Preparing to unpack .../068-gcc_4%3a14.1.0-2ubuntu1_armhf.deb ... 768s Unpacking gcc (4:14.1.0-2ubuntu1) ... 768s Selecting previously unselected package libstdc++-14-dev:armhf. 768s Preparing to unpack .../069-libstdc++-14-dev_14.2.0-7ubuntu1_armhf.deb ... 768s Unpacking libstdc++-14-dev:armhf (14.2.0-7ubuntu1) ... 768s Selecting previously unselected package g++-14-arm-linux-gnueabihf. 768s Preparing to unpack .../070-g++-14-arm-linux-gnueabihf_14.2.0-7ubuntu1_armhf.deb ... 768s Unpacking g++-14-arm-linux-gnueabihf (14.2.0-7ubuntu1) ... 769s Selecting previously unselected package g++-14. 769s Preparing to unpack .../071-g++-14_14.2.0-7ubuntu1_armhf.deb ... 769s Unpacking g++-14 (14.2.0-7ubuntu1) ... 769s Selecting previously unselected package g++-arm-linux-gnueabihf. 769s Preparing to unpack .../072-g++-arm-linux-gnueabihf_4%3a14.1.0-2ubuntu1_armhf.deb ... 769s Unpacking g++-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 769s Selecting previously unselected package g++. 769s Preparing to unpack .../073-g++_4%3a14.1.0-2ubuntu1_armhf.deb ... 769s Unpacking g++ (4:14.1.0-2ubuntu1) ... 769s Selecting previously unselected package build-essential. 769s Preparing to unpack .../074-build-essential_12.10ubuntu1_armhf.deb ... 769s Unpacking build-essential (12.10ubuntu1) ... 769s Selecting previously unselected package bwa. 769s Preparing to unpack .../075-bwa_0.7.17-7_armhf.deb ... 769s Unpacking bwa (0.7.17-7) ... 769s Selecting previously unselected package libargtable2-0. 769s Preparing to unpack .../076-libargtable2-0_13-2_armhf.deb ... 769s Unpacking libargtable2-0 (13-2) ... 769s Selecting previously unselected package clustalo. 769s Preparing to unpack .../077-clustalo_1.2.4-8build1_armhf.deb ... 769s Unpacking clustalo (1.2.4-8build1) ... 769s Selecting previously unselected package libdebhelper-perl. 769s Preparing to unpack .../078-libdebhelper-perl_13.20ubuntu1_all.deb ... 769s Unpacking libdebhelper-perl (13.20ubuntu1) ... 769s Selecting previously unselected package libtool. 769s Preparing to unpack .../079-libtool_2.4.7-7build1_all.deb ... 769s Unpacking libtool (2.4.7-7build1) ... 769s Selecting previously unselected package dh-autoreconf. 769s Preparing to unpack .../080-dh-autoreconf_20_all.deb ... 769s Unpacking dh-autoreconf (20) ... 769s Selecting previously unselected package libarchive-zip-perl. 769s Preparing to unpack .../081-libarchive-zip-perl_1.68-1_all.deb ... 769s Unpacking libarchive-zip-perl (1.68-1) ... 769s Selecting previously unselected package libfile-stripnondeterminism-perl. 769s Preparing to unpack .../082-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... 769s Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... 769s Selecting previously unselected package dh-strip-nondeterminism. 769s Preparing to unpack .../083-dh-strip-nondeterminism_1.14.0-1_all.deb ... 769s Unpacking dh-strip-nondeterminism (1.14.0-1) ... 769s Selecting previously unselected package debugedit. 769s Preparing to unpack .../084-debugedit_1%3a5.0-6_armhf.deb ... 769s Unpacking debugedit (1:5.0-6) ... 769s Selecting previously unselected package dwz. 769s Preparing to unpack .../085-dwz_0.15-1build6_armhf.deb ... 769s Unpacking dwz (0.15-1build6) ... 770s Selecting previously unselected package gettext. 770s Preparing to unpack .../086-gettext_0.22.5-2_armhf.deb ... 770s Unpacking gettext (0.22.5-2) ... 770s Selecting previously unselected package intltool-debian. 770s Preparing to unpack .../087-intltool-debian_0.35.0+20060710.6_all.deb ... 770s Unpacking intltool-debian (0.35.0+20060710.6) ... 770s Selecting previously unselected package po-debconf. 770s Preparing to unpack .../088-po-debconf_1.0.21+nmu1_all.deb ... 770s Unpacking po-debconf (1.0.21+nmu1) ... 770s Selecting previously unselected package debhelper. 770s Preparing to unpack .../089-debhelper_13.20ubuntu1_all.deb ... 770s Unpacking debhelper (13.20ubuntu1) ... 770s Selecting previously unselected package dh-python. 770s Preparing to unpack .../090-dh-python_6.20240824_all.deb ... 770s Unpacking dh-python (6.20240824) ... 770s Selecting previously unselected package dialign. 770s Preparing to unpack .../091-dialign_2.2.1-13_armhf.deb ... 770s Unpacking dialign (2.2.1-13) ... 770s Selecting previously unselected package libcifpp-data. 770s Preparing to unpack .../092-libcifpp-data_5.0.7.1-3build1_all.deb ... 770s Unpacking libcifpp-data (5.0.7.1-3build1) ... 770s Selecting previously unselected package libcifpp5:armhf. 770s Preparing to unpack .../093-libcifpp5_5.0.7.1-3build1_armhf.deb ... 770s Unpacking libcifpp5:armhf (5.0.7.1-3build1) ... 770s Selecting previously unselected package dssp. 770s Preparing to unpack .../094-dssp_4.2.2-2_armhf.deb ... 770s Unpacking dssp (4.2.2-2) ... 770s Selecting previously unselected package fonts-lmodern. 770s Preparing to unpack .../095-fonts-lmodern_2.005-1_all.deb ... 770s Unpacking fonts-lmodern (2.005-1) ... 770s Selecting previously unselected package fonts-lyx. 770s Preparing to unpack .../096-fonts-lyx_2.4.1-2_all.deb ... 770s Unpacking fonts-lyx (2.4.1-2) ... 770s Selecting previously unselected package libgs-common. 770s Preparing to unpack .../097-libgs-common_10.03.1~dfsg1-0ubuntu2_all.deb ... 770s Unpacking libgs-common (10.03.1~dfsg1-0ubuntu2) ... 770s Selecting previously unselected package libgs10-common. 770s Preparing to unpack .../098-libgs10-common_10.03.1~dfsg1-0ubuntu2_all.deb ... 770s Unpacking libgs10-common (10.03.1~dfsg1-0ubuntu2) ... 771s Selecting previously unselected package libavahi-common-data:armhf. 771s Preparing to unpack .../099-libavahi-common-data_0.8-13ubuntu6_armhf.deb ... 771s Unpacking libavahi-common-data:armhf (0.8-13ubuntu6) ... 771s Selecting previously unselected package libavahi-common3:armhf. 771s Preparing to unpack .../100-libavahi-common3_0.8-13ubuntu6_armhf.deb ... 771s Unpacking libavahi-common3:armhf (0.8-13ubuntu6) ... 771s Selecting previously unselected package libavahi-client3:armhf. 771s Preparing to unpack .../101-libavahi-client3_0.8-13ubuntu6_armhf.deb ... 771s Unpacking libavahi-client3:armhf (0.8-13ubuntu6) ... 771s Selecting previously unselected package libcups2t64:armhf. 771s Preparing to unpack .../102-libcups2t64_2.4.10-1ubuntu2_armhf.deb ... 771s Unpacking libcups2t64:armhf (2.4.10-1ubuntu2) ... 771s Selecting previously unselected package libidn12:armhf. 771s Preparing to unpack .../103-libidn12_1.42-2_armhf.deb ... 771s Unpacking libidn12:armhf (1.42-2) ... 771s Selecting previously unselected package libijs-0.35:armhf. 771s Preparing to unpack .../104-libijs-0.35_0.35-15.1build1_armhf.deb ... 771s Unpacking libijs-0.35:armhf (0.35-15.1build1) ... 771s Selecting previously unselected package libjbig2dec0:armhf. 771s Preparing to unpack .../105-libjbig2dec0_0.20-1build3_armhf.deb ... 771s Unpacking libjbig2dec0:armhf (0.20-1build3) ... 771s Selecting previously unselected package libpaper1:armhf. 771s Preparing to unpack .../106-libpaper1_1.1.29build1_armhf.deb ... 771s Unpacking libpaper1:armhf (1.1.29build1) ... 771s Selecting previously unselected package libice6:armhf. 771s Preparing to unpack .../107-libice6_2%3a1.0.10-1build3_armhf.deb ... 771s Unpacking libice6:armhf (2:1.0.10-1build3) ... 771s Selecting previously unselected package libsm6:armhf. 771s Preparing to unpack .../108-libsm6_2%3a1.2.3-1build3_armhf.deb ... 771s Unpacking libsm6:armhf (2:1.2.3-1build3) ... 771s Selecting previously unselected package libxt6t64:armhf. 771s Preparing to unpack .../109-libxt6t64_1%3a1.2.1-1.2build1_armhf.deb ... 771s Unpacking libxt6t64:armhf (1:1.2.1-1.2build1) ... 771s Selecting previously unselected package libgs10:armhf. 771s Preparing to unpack .../110-libgs10_10.03.1~dfsg1-0ubuntu2_armhf.deb ... 771s Unpacking libgs10:armhf (10.03.1~dfsg1-0ubuntu2) ... 771s Selecting previously unselected package ghostscript. 771s Preparing to unpack .../111-ghostscript_10.03.1~dfsg1-0ubuntu2_armhf.deb ... 771s Unpacking ghostscript (10.03.1~dfsg1-0ubuntu2) ... 771s Selecting previously unselected package libnetpbm11t64:armhf. 771s Preparing to unpack .../112-libnetpbm11t64_2%3a11.07.00-2_armhf.deb ... 771s Unpacking libnetpbm11t64:armhf (2:11.07.00-2) ... 771s Selecting previously unselected package netpbm. 772s Preparing to unpack .../113-netpbm_2%3a11.07.00-2_armhf.deb ... 772s Unpacking netpbm (2:11.07.00-2) ... 772s Selecting previously unselected package tex-common. 772s Preparing to unpack .../114-tex-common_6.18_all.deb ... 772s Unpacking tex-common (6.18) ... 772s Selecting previously unselected package libpaper-utils. 772s Preparing to unpack .../115-libpaper-utils_1.1.29build1_armhf.deb ... 772s Unpacking libpaper-utils (1.1.29build1) ... 772s Selecting previously unselected package libkpathsea6:armhf. 772s Preparing to unpack .../116-libkpathsea6_2024.20240313.70630+ds-4_armhf.deb ... 772s Unpacking libkpathsea6:armhf (2024.20240313.70630+ds-4) ... 772s Selecting previously unselected package libptexenc1:armhf. 772s Preparing to unpack .../117-libptexenc1_2024.20240313.70630+ds-4_armhf.deb ... 772s Unpacking libptexenc1:armhf (2024.20240313.70630+ds-4) ... 772s Selecting previously unselected package libsynctex2:armhf. 772s Preparing to unpack .../118-libsynctex2_2024.20240313.70630+ds-4_armhf.deb ... 772s Unpacking libsynctex2:armhf (2024.20240313.70630+ds-4) ... 772s Selecting previously unselected package libtexlua53-5:armhf. 772s Preparing to unpack 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libcairo2:armhf (1.18.2-2) ... 772s Selecting previously unselected package libgraphite2-3:armhf. 772s Preparing to unpack .../125-libgraphite2-3_1.3.14-2ubuntu1_armhf.deb ... 772s Unpacking libgraphite2-3:armhf (1.3.14-2ubuntu1) ... 772s Selecting previously unselected package libharfbuzz0b:armhf. 772s Preparing to unpack .../126-libharfbuzz0b_9.0.0-1_armhf.deb ... 772s Unpacking libharfbuzz0b:armhf (9.0.0-1) ... 772s Selecting previously unselected package libmpfi0:armhf. 772s Preparing to unpack .../127-libmpfi0_1.5.4+ds-3_armhf.deb ... 772s Unpacking libmpfi0:armhf (1.5.4+ds-3) ... 772s Selecting previously unselected package libpotrace0:armhf. 773s Preparing to unpack .../128-libpotrace0_1.16-2build1_armhf.deb ... 773s Unpacking libpotrace0:armhf (1.16-2build1) ... 773s Selecting previously unselected package libteckit0:armhf. 773s Preparing to unpack .../129-libteckit0_2.5.12+ds1-1_armhf.deb ... 773s Unpacking libteckit0:armhf (2.5.12+ds1-1) ... 773s Selecting previously unselected package libxmu6:armhf. 773s Preparing to unpack .../130-libxmu6_2%3a1.1.3-3build2_armhf.deb ... 773s Unpacking libxmu6:armhf (2:1.1.3-3build2) ... 773s Selecting previously unselected package libxpm4:armhf. 773s Preparing to unpack .../131-libxpm4_1%3a3.5.17-1build2_armhf.deb ... 773s Unpacking libxpm4:armhf (1:3.5.17-1build2) ... 773s Selecting previously unselected package libxaw7:armhf. 773s Preparing to unpack .../132-libxaw7_2%3a1.0.14-1build2_armhf.deb ... 773s Unpacking libxaw7:armhf (2:1.0.14-1build2) ... 773s Selecting previously unselected package libxi6:armhf. 773s Preparing to unpack .../133-libxi6_2%3a1.8.2-1_armhf.deb ... 773s Unpacking libxi6:armhf (2:1.8.2-1) ... 773s Selecting previously unselected package libzzip-0-13t64:armhf. 773s Preparing to unpack .../134-libzzip-0-13t64_0.13.72+dfsg.1-1.2build1_armhf.deb ... 773s Unpacking libzzip-0-13t64:armhf (0.13.72+dfsg.1-1.2build1) ... 773s Selecting previously unselected package texlive-binaries. 773s Preparing to unpack .../135-texlive-binaries_2024.20240313.70630+ds-4_armhf.deb ... 773s Unpacking texlive-binaries (2024.20240313.70630+ds-4) ... 773s Selecting previously unselected package xdg-utils. 773s Preparing to unpack .../136-xdg-utils_1.2.1-0ubuntu1_all.deb ... 773s Unpacking xdg-utils (1.2.1-0ubuntu1) ... 773s Selecting previously unselected package texlive-base. 773s Preparing to unpack .../137-texlive-base_2024.20240706-1_all.deb ... 773s Unpacking texlive-base (2024.20240706-1) ... 775s Selecting previously unselected package hicolor-icon-theme. 775s Preparing to unpack .../138-hicolor-icon-theme_0.18-1_all.deb ... 775s Unpacking hicolor-icon-theme (0.18-1) ... 775s Selecting previously unselected package imagemagick-6.q16. 775s Preparing to unpack .../139-imagemagick-6.q16_8%3a6.9.13.12+dfsg1-1build1_armhf.deb ... 775s Unpacking imagemagick-6.q16 (8:6.9.13.12+dfsg1-1build1) ... 775s Selecting previously unselected package imagemagick. 775s Preparing to unpack .../140-imagemagick_8%3a6.9.13.12+dfsg1-1build1_armhf.deb ... 775s Unpacking imagemagick (8:6.9.13.12+dfsg1-1build1) ... 775s Selecting previously unselected package hevea. 775s Preparing to unpack .../141-hevea_2.36-2_armhf.deb ... 775s Unpacking hevea (2.36-2) ... 775s Selecting previously unselected package libapache-pom-java. 775s Preparing to unpack .../142-libapache-pom-java_29-2_all.deb ... 775s Unpacking libapache-pom-java (29-2) ... 775s Selecting previously unselected package libblas3:armhf. 775s Preparing to unpack .../143-libblas3_3.12.0-3build2_armhf.deb ... 775s Unpacking libblas3:armhf (3.12.0-3build2) ... 775s Selecting previously unselected package libcommons-parent-java. 775s Preparing to unpack .../144-libcommons-parent-java_56-1_all.deb ... 775s Unpacking libcommons-parent-java (56-1) ... 775s Selecting previously unselected package libcommons-logging-java. 775s Preparing to unpack .../145-libcommons-logging-java_1.3.0-1ubuntu1_all.deb ... 775s Unpacking libcommons-logging-java (1.3.0-1ubuntu1) ... 775s Selecting previously unselected package libexpat1-dev:armhf. 775s Preparing to unpack .../146-libexpat1-dev_2.6.2-2_armhf.deb ... 775s Unpacking libexpat1-dev:armhf (2.6.2-2) ... 775s Selecting previously unselected package libgfortran5:armhf. 775s Preparing to unpack .../147-libgfortran5_14.2.0-7ubuntu1_armhf.deb ... 775s Unpacking libgfortran5:armhf (14.2.0-7ubuntu1) ... 775s Selecting previously unselected package libimagequant0:armhf. 775s Preparing to unpack .../148-libimagequant0_2.18.0-1build1_armhf.deb ... 775s Unpacking libimagequant0:armhf (2.18.0-1build1) ... 775s Selecting previously unselected package libjs-jquery. 775s Preparing to unpack .../149-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 775s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 775s Selecting previously unselected package libjs-jquery-ui. 775s Preparing to unpack .../150-libjs-jquery-ui_1.13.2+dfsg-1_all.deb ... 775s Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ... 776s Selecting previously unselected package libjs-underscore. 776s Preparing to unpack .../151-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 776s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 776s Selecting previously unselected package libjs-sphinxdoc. 776s Preparing to unpack .../152-libjs-sphinxdoc_7.4.7-3_all.deb ... 776s Unpacking libjs-sphinxdoc (7.4.7-3) ... 776s Selecting previously unselected package liblapack3:armhf. 776s Preparing to unpack .../153-liblapack3_3.12.0-3build2_armhf.deb ... 776s Unpacking liblapack3:armhf (3.12.0-3build2) ... 776s Selecting previously unselected package liblbfgsb0:armhf. 776s Preparing to unpack .../154-liblbfgsb0_3.0+dfsg.4-1build1_armhf.deb ... 776s Unpacking liblbfgsb0:armhf (3.0+dfsg.4-1build1) ... 776s Selecting previously unselected package libmbedcrypto7t64:armhf. 776s Preparing to unpack .../155-libmbedcrypto7t64_2.28.8-1_armhf.deb ... 776s Unpacking libmbedcrypto7t64:armhf (2.28.8-1) ... 776s Selecting previously unselected package libmbedx509-1t64:armhf. 776s Preparing to unpack .../156-libmbedx509-1t64_2.28.8-1_armhf.deb ... 776s Unpacking libmbedx509-1t64:armhf (2.28.8-1) ... 776s Selecting previously unselected package libmbedtls14t64:armhf. 776s Preparing to unpack .../157-libmbedtls14t64_2.28.8-1_armhf.deb ... 776s Unpacking libmbedtls14t64:armhf (2.28.8-1) ... 776s Selecting previously unselected package mysql-common. 776s Preparing to unpack .../158-mysql-common_5.8+1.1.1_all.deb ... 776s Unpacking mysql-common (5.8+1.1.1) ... 776s Selecting previously unselected package libmysqlclient21:armhf. 776s Preparing to unpack .../159-libmysqlclient21_8.0.39-1_armhf.deb ... 776s Unpacking libmysqlclient21:armhf (8.0.39-1) ... 776s Selecting previously unselected package libpython3.12t64:armhf. 776s Preparing to unpack .../160-libpython3.12t64_3.12.7-1_armhf.deb ... 776s Unpacking libpython3.12t64:armhf (3.12.7-1) ... 776s Selecting previously unselected package zlib1g-dev:armhf. 776s Preparing to unpack .../161-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1ubuntu1_armhf.deb ... 776s Unpacking zlib1g-dev:armhf (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 776s Selecting previously unselected package libpython3.12-dev:armhf. 776s Preparing to unpack .../162-libpython3.12-dev_3.12.7-1_armhf.deb ... 776s Unpacking libpython3.12-dev:armhf (3.12.7-1) ... 777s Selecting previously unselected package libpython3-dev:armhf. 777s Preparing to unpack .../163-libpython3-dev_3.12.6-0ubuntu1_armhf.deb ... 777s Unpacking libpython3-dev:armhf (3.12.6-0ubuntu1) ... 777s Selecting previously unselected package libpython3-all-dev:armhf. 777s Preparing to unpack .../164-libpython3-all-dev_3.12.6-0ubuntu1_armhf.deb ... 777s Unpacking libpython3-all-dev:armhf (3.12.6-0ubuntu1) ... 777s Selecting previously unselected package libqhull-r8.0:armhf. 777s Preparing to unpack .../165-libqhull-r8.0_2020.2-6build1_armhf.deb ... 777s Unpacking libqhull-r8.0:armhf (2020.2-6build1) ... 777s Selecting previously unselected package libraqm0:armhf. 777s Preparing to unpack .../166-libraqm0_0.10.1-1build1_armhf.deb ... 777s Unpacking libraqm0:armhf (0.10.1-1build1) ... 777s Selecting previously unselected package libxslt1.1:armhf. 777s Preparing to unpack .../167-libxslt1.1_1.1.39-0exp1ubuntu1_armhf.deb ... 777s Unpacking libxslt1.1:armhf (1.1.39-0exp1ubuntu1) ... 777s Selecting previously unselected package mafft. 777s Preparing to unpack .../168-mafft_7.505-1_armhf.deb ... 777s Unpacking mafft (7.505-1) ... 777s Selecting previously unselected package ncbi-data. 777s Preparing to unpack .../169-ncbi-data_6.1.20170106+dfsg2-3_all.deb ... 777s Unpacking ncbi-data (6.1.20170106+dfsg2-3) ... 777s Selecting previously unselected package ncbi-blast+. 777s Preparing to unpack .../170-ncbi-blast+_2.16.0+ds-6_armhf.deb ... 777s Unpacking ncbi-blast+ (2.16.0+ds-6) ... 778s Selecting previously unselected package phylip. 778s Preparing to unpack .../171-phylip_1%3a3.697+dfsg-4build1_armhf.deb ... 778s Unpacking phylip (1:3.697+dfsg-4build1) ... 778s Selecting previously unselected package prank. 778s Preparing to unpack .../172-prank_0.0.170427+dfsg-3_armhf.deb ... 778s Unpacking prank (0.0.170427+dfsg-3) ... 778s Selecting previously unselected package preview-latex-style. 778s Preparing to unpack .../173-preview-latex-style_13.2-1_all.deb ... 778s Unpacking preview-latex-style (13.2-1) ... 778s Selecting previously unselected package probcons. 778s Preparing to unpack .../174-probcons_1.12-14_armhf.deb ... 778s Unpacking probcons (1.12-14) ... 778s Selecting previously unselected package python-biopython-doc. 778s Preparing to unpack .../175-python-biopython-doc_1.83+dfsg1-3_all.deb ... 778s Unpacking python-biopython-doc (1.83+dfsg1-3) ... 779s Selecting previously unselected package python-matplotlib-data. 779s Preparing to unpack .../176-python-matplotlib-data_3.8.3-3_all.deb ... 779s Unpacking python-matplotlib-data (3.8.3-3) ... 779s Selecting previously unselected package python3-all. 779s Preparing to unpack .../177-python3-all_3.12.6-0ubuntu1_armhf.deb ... 779s Unpacking python3-all (3.12.6-0ubuntu1) ... 779s Selecting previously unselected package python3.12-dev. 779s Preparing to unpack .../178-python3.12-dev_3.12.7-1_armhf.deb ... 779s Unpacking python3.12-dev (3.12.7-1) ... 779s Selecting previously unselected package python3-dev. 779s Preparing to unpack .../179-python3-dev_3.12.6-0ubuntu1_armhf.deb ... 779s Unpacking python3-dev (3.12.6-0ubuntu1) ... 779s Selecting previously unselected package python3-all-dev. 779s Preparing to unpack .../180-python3-all-dev_3.12.6-0ubuntu1_armhf.deb ... 779s Unpacking python3-all-dev (3.12.6-0ubuntu1) ... 779s Selecting previously unselected package python3-appdirs. 779s Preparing to unpack .../181-python3-appdirs_1.4.4-4_all.deb ... 779s Unpacking python3-appdirs (1.4.4-4) ... 779s Selecting previously unselected package python3-numpy. 779s Preparing to unpack .../182-python3-numpy_1%3a1.26.4+ds-11build1_armhf.deb ... 779s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 779s Selecting previously unselected package python3.12-tk. 779s Preparing to unpack .../183-python3.12-tk_3.12.7-1_armhf.deb ... 779s Unpacking python3.12-tk (3.12.7-1) ... 779s Selecting previously unselected package python3-tk:armhf. 779s Preparing to unpack .../184-python3-tk_3.12.6-1ubuntu1_armhf.deb ... 779s Unpacking python3-tk:armhf (3.12.6-1ubuntu1) ... 780s Selecting previously unselected package python3-pil.imagetk:armhf. 780s Preparing to unpack .../185-python3-pil.imagetk_10.4.0-1ubuntu1_armhf.deb ... 780s Unpacking python3-pil.imagetk:armhf (10.4.0-1ubuntu1) ... 780s Selecting previously unselected package python3-pil:armhf. 780s Preparing to unpack .../186-python3-pil_10.4.0-1ubuntu1_armhf.deb ... 780s Unpacking python3-pil:armhf (10.4.0-1ubuntu1) ... 780s Selecting previously unselected package python3-cairo. 780s Preparing to unpack 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python3-biopython. 780s Preparing to unpack .../193-python3-biopython_1.83+dfsg1-3_armhf.deb ... 780s Unpacking python3-biopython (1.83+dfsg1-3) ... 780s Selecting previously unselected package python3-biopython-sql. 780s Preparing to unpack .../194-python3-biopython-sql_1.83+dfsg1-3_all.deb ... 780s Unpacking python3-biopython-sql (1.83+dfsg1-3) ... 780s Selecting previously unselected package python3-brotli. 781s Preparing to unpack .../195-python3-brotli_1.1.0-2build2_armhf.deb ... 781s Unpacking python3-brotli (1.1.0-2build2) ... 781s Selecting previously unselected package python3-contourpy. 781s Preparing to unpack .../196-python3-contourpy_1.2.1-1_armhf.deb ... 781s Unpacking python3-contourpy (1.2.1-1) ... 781s Selecting previously unselected package python3-cycler. 781s Preparing to unpack .../197-python3-cycler_0.12.1-1_all.deb ... 781s Unpacking python3-cycler (0.12.1-1) ... 781s Selecting previously unselected package python3-six. 781s Preparing to unpack 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previously unselected package python3-sympy. 782s Preparing to unpack .../204-python3-sympy_1.13.1-1_all.deb ... 782s Unpacking python3-sympy (1.13.1-1) ... 782s Selecting previously unselected package python3-tz. 782s Preparing to unpack .../205-python3-tz_2024.1-2_all.deb ... 782s Unpacking python3-tz (2024.1-2) ... 782s Selecting previously unselected package python3-fs. 782s Preparing to unpack .../206-python3-fs_2.4.16-4_all.deb ... 782s Unpacking python3-fs (2.4.16-4) ... 782s Selecting previously unselected package python3-lxml:armhf. 783s Preparing to unpack .../207-python3-lxml_5.3.0-1_armhf.deb ... 783s Unpacking python3-lxml:armhf (5.3.0-1) ... 783s Selecting previously unselected package python3-lz4. 783s Preparing to unpack .../208-python3-lz4_4.0.2+dfsg-1build4_armhf.deb ... 783s Unpacking python3-lz4 (4.0.2+dfsg-1build4) ... 783s Selecting previously unselected package unicode-data. 783s Preparing to unpack .../209-unicode-data_15.1.0-1_all.deb ... 783s Unpacking unicode-data (15.1.0-1) ... 783s Selecting previously unselected package python3-fonttools. 783s Preparing to unpack .../210-python3-fonttools_4.46.0-1build2_armhf.deb ... 783s Unpacking python3-fonttools (4.46.0-1build2) ... 783s Selecting previously unselected package python3-isodate. 783s Preparing to unpack .../211-python3-isodate_0.6.1-3_all.deb ... 783s Unpacking python3-isodate (0.6.1-3) ... 783s Selecting previously unselected package python3-kiwisolver. 783s Preparing to unpack .../212-python3-kiwisolver_1.4.5-1_armhf.deb ... 783s Unpacking python3-kiwisolver (1.4.5-1) ... 783s Selecting previously unselected package python3-packaging. 783s Preparing to unpack .../213-python3-packaging_24.1-1_all.deb ... 783s Unpacking python3-packaging (24.1-1) ... 783s Selecting previously unselected package python3-matplotlib. 783s Preparing to unpack .../214-python3-matplotlib_3.8.3-3_armhf.deb ... 783s Unpacking python3-matplotlib (3.8.3-3) ... 784s Selecting previously unselected package python3-msgpack. 784s Preparing to unpack .../215-python3-msgpack_1.0.3-3build2_armhf.deb ... 784s Unpacking python3-msgpack (1.0.3-3build2) ... 784s Selecting previously unselected package python3-mmtf. 784s Preparing to unpack .../216-python3-mmtf_1.1.3-1_all.deb ... 784s Unpacking python3-mmtf (1.1.3-1) ... 784s Selecting previously unselected package python3-mysqldb. 784s Preparing to unpack .../217-python3-mysqldb_1.4.6-2build3_armhf.deb ... 784s Unpacking python3-mysqldb (1.4.6-2build3) ... 784s Selecting previously unselected package python3-networkx. 784s Preparing to unpack .../218-python3-networkx_3.2.1-4ubuntu1_all.deb ... 784s Unpacking python3-networkx (3.2.1-4ubuntu1) ... 785s Selecting previously unselected package python3-rdflib. 785s Preparing to unpack .../219-python3-rdflib_7.0.0-1_all.deb ... 785s Unpacking python3-rdflib (7.0.0-1) ... 785s Selecting previously unselected package t-coffee. 785s Preparing to unpack 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Setting up xml-core (0.19) ... 811s Setting up libc6-dev:armhf (2.40-1ubuntu3) ... 811s Setting up python3-contourpy (1.2.1-1) ... 811s Setting up libfontconfig1:armhf (2.15.0-1.1ubuntu2) ... 811s Setting up libstdc++-14-dev:armhf (14.2.0-7ubuntu1) ... 811s Setting up libsm6:armhf (2:1.2.3-1build3) ... 811s Setting up libavahi-client3:armhf (0.8-13ubuntu6) ... 811s Setting up cpp-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 811s Setting up liblbfgsb0:armhf (3.0+dfsg.4-1build1) ... 811s Setting up gcc-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 811s Setting up g++-14-arm-linux-gnueabihf (14.2.0-7ubuntu1) ... 811s Setting up libxft2:armhf (2.3.6-1build1) ... 811s Setting up python3-scipy (1.13.1-3) ... 816s Setting up po-debconf (1.0.21+nmu1) ... 816s Setting up libtk8.6:armhf (8.6.14-1build1) ... 816s Setting up python3.12-tk (3.12.7-1) ... 816s Setting up python3-mmtf (1.1.3-1) ... 816s Setting up fonts-urw-base35 (20200910-8) ... 816s Setting up dssp (4.2.2-2) ... 816s Setting up 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(3.12.7-1) ... 817s Setting up libxaw7:armhf (2:1.0.14-1build2) ... 817s Setting up gcc (4:14.1.0-2ubuntu1) ... 817s Setting up dh-autoreconf (20) ... 817s Setting up python3-pil.imagetk:armhf (10.4.0-1ubuntu1) ... 817s Setting up python3-rlpycairo (0.3.0-3) ... 818s Setting up python3.12-dev (3.12.7-1) ... 818s Setting up python3-reportlab (4.2.2-1) ... 819s Setting up g++ (4:14.1.0-2ubuntu1) ... 819s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 819s Setting up texlive-binaries (2024.20240313.70630+ds-4) ... 819s update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode 819s update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode 819s Setting up build-essential (12.10ubuntu1) ... 819s Setting up texlive-base (2024.20240706-1) ... 820s tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps 820s tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg 820s tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper 820s tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex 821s Setting up libgs10:armhf (10.03.1~dfsg1-0ubuntu2) ... 821s Setting up libpython3-dev:armhf (3.12.6-0ubuntu1) ... 821s Setting up debhelper (13.20ubuntu1) ... 821s Setting up ghostscript (10.03.1~dfsg1-0ubuntu2) ... 821s Setting up texlive-latex-base (2024.20240706-1) ... 821s Setting up libpython3-all-dev:armhf (3.12.6-0ubuntu1) ... 821s Setting up python3-dev (3.12.6-0ubuntu1) ... 821s Setting up texlive-latex-recommended (2024.20240706-1) ... 821s Setting up texlive-pictures (2024.20240706-1) ... 821s Setting up texlive-fonts-recommended (2024.20240706-1) ... 821s Setting up python3-all-dev (3.12.6-0ubuntu1) ... 821s Setting up texlive-latex-extra (2024.20240706-2) ... 821s Setting up python3-ufolib2 (0.16.0+dfsg1-1) ... 822s Setting up libheif-plugin-aomdec:armhf (1.18.1-2) ... 822s Setting up libheif-plugin-libde265:armhf (1.18.1-2) ... 822s Setting up libheif1:armhf (1.18.1-2) ... 822s Setting up libmagickcore-6.q16-7t64:armhf (8:6.9.13.12+dfsg1-1build1) ... 822s Setting up python3-fonttools (4.46.0-1build2) ... 823s Setting up libmagickwand-6.q16-7t64:armhf (8:6.9.13.12+dfsg1-1build1) ... 823s Setting up imagemagick-6.q16 (8:6.9.13.12+dfsg1-1build1) ... 823s update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare (compare) in auto mode 823s update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare-im6 (compare-im6) in auto mode 823s update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate (animate) in auto mode 823s update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate-im6 (animate-im6) in auto mode 823s update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert (convert) in auto mode 823s update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert-im6 (convert-im6) in auto mode 823s update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite (composite) in auto mode 823s update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite-im6 (composite-im6) in auto mode 823s update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure (conjure) in auto mode 823s update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure-im6 (conjure-im6) in auto mode 823s update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import (import) in auto mode 823s update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import-im6 (import-im6) in auto mode 823s update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify (identify) in auto mode 823s update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify-im6 (identify-im6) in auto mode 823s update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream (stream) in auto mode 823s update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream-im6 (stream-im6) in auto mode 823s update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display (display) in auto mode 823s update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display-im6 (display-im6) in auto mode 823s update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage (montage) in auto mode 823s update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage-im6 (montage-im6) in auto mode 823s update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify (mogrify) in auto mode 823s update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify-im6 (mogrify-im6) in auto mode 823s Setting up python3-matplotlib (3.8.3-3) ... 825s Setting up hevea (2.36-2) ... 825s Setting up imagemagick (8:6.9.13.12+dfsg1-1build1) ... 825s Processing triggers for install-info (7.1.1-1) ... 825s Processing triggers for libc-bin (2.40-1ubuntu3) ... 825s Processing triggers for man-db (2.12.1-3) ... 827s Processing triggers for sgml-base (1.31) ... 827s Setting up w3c-sgml-lib (1.3-3) ... 862s Setting up python3-biopython (1.83+dfsg1-3) ... 864s Setting up python3-biopython-sql (1.83+dfsg1-3) ... 864s Setting up autopkgtest-satdep (0) ... 864s Processing triggers for tex-common (6.18) ... 865s Running updmap-sys. This may take some time... done. 865s Running mktexlsr /var/lib/texmf ... done. 865s Building format(s) --all. 1007s This may take some time... done. 1048s (Reading database ... 103691 files and directories currently installed.) 1048s Removing autopkgtest-satdep (0) ... 1069s autopkgtest [10:29:30]: test full_suite: sh debian/tests/run-unit-test 1069s autopkgtest [10:29:30]: test full_suite: [----------------------- 1074s mkdir: created directory 'Bio' 1074s mkdir: created directory 'Bio/Align' 1074s mkdir: created directory 'Bio/Align/substitution_matrices' 1074s mkdir: created directory 'Bio/Align/substitution_matrices/data/' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER22' -> 'Bio/Align/substitution_matrices/data/BENNER22' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER6' -> 'Bio/Align/substitution_matrices/data/BENNER6' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BENNER74' -> 'Bio/Align/substitution_matrices/data/BENNER74' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLASTN' -> 'Bio/Align/substitution_matrices/data/BLASTN' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLASTP' -> 'Bio/Align/substitution_matrices/data/BLASTP' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM45' -> 'Bio/Align/substitution_matrices/data/BLOSUM45' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM50' -> 'Bio/Align/substitution_matrices/data/BLOSUM50' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM62' -> 'Bio/Align/substitution_matrices/data/BLOSUM62' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM80' -> 'Bio/Align/substitution_matrices/data/BLOSUM80' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/BLOSUM90' -> 'Bio/Align/substitution_matrices/data/BLOSUM90' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/DAYHOFF' -> 'Bio/Align/substitution_matrices/data/DAYHOFF' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/FENG' -> 'Bio/Align/substitution_matrices/data/FENG' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/GENETIC' -> 'Bio/Align/substitution_matrices/data/GENETIC' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/GONNET1992' -> 'Bio/Align/substitution_matrices/data/GONNET1992' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/HOXD70' -> 'Bio/Align/substitution_matrices/data/HOXD70' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/JOHNSON' -> 'Bio/Align/substitution_matrices/data/JOHNSON' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/JONES' -> 'Bio/Align/substitution_matrices/data/JONES' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/LEVIN' -> 'Bio/Align/substitution_matrices/data/LEVIN' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MCLACHLAN' -> 'Bio/Align/substitution_matrices/data/MCLACHLAN' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MDM78' -> 'Bio/Align/substitution_matrices/data/MDM78' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/MEGABLAST' -> 'Bio/Align/substitution_matrices/data/MEGABLAST' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/NUC.4.4' -> 'Bio/Align/substitution_matrices/data/NUC.4.4' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM250' -> 'Bio/Align/substitution_matrices/data/PAM250' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM30' -> 'Bio/Align/substitution_matrices/data/PAM30' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/PAM70' -> 'Bio/Align/substitution_matrices/data/PAM70' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/RAO' -> 'Bio/Align/substitution_matrices/data/RAO' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/RISLER' -> 'Bio/Align/substitution_matrices/data/RISLER' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/SCHNEIDER' -> 'Bio/Align/substitution_matrices/data/SCHNEIDER' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/STR' -> 'Bio/Align/substitution_matrices/data/STR' 1074s '/usr/lib/python3/dist-packages/Bio/Align/substitution_matrices/data/TRANS' -> 'Bio/Align/substitution_matrices/data/TRANS' 1074s Remove test test_Tutorial.py which is bound to fail 1075s test_Ace ... ok 1075s test_Affy ... ok 1078s test_AlignIO ... ok 1078s test_AlignIO_ClustalIO ... ok 1078s test_AlignIO_EmbossIO ... ok 1078s test_AlignIO_FastaIO ... ok 1079s test_AlignIO_MauveIO ... ok 1079s test_AlignIO_PhylipIO ... ok 1079s test_AlignIO_convert ... ok 1079s test_AlignInfo ... ok 1079s test_Align_Alignment ... ok 1079s test_Align_a2m ... ok 1079s test_Align_bed ... ok 1080s test_Align_bigbed ... ok 1080s test_Align_bigmaf ... ok 1081s test_Align_bigpsl ... ok 1081s test_Align_chain ... ok 1081s test_Align_clustal ... ok 1087s test_Align_codonalign ... ok 1087s test_Align_emboss ... ok 1087s test_Align_exonerate ... ok 1087s test_Align_fasta ... ok 1087s test_Align_hhr ... ok 1088s test_Align_maf ... ok 1088s test_Align_mauve ... ok 1088s test_Align_msf ... ok 1088s test_Align_nexus ... ok 1088s test_Align_phylip ... ok 1089s test_Align_psl ... ok 1089s test_Align_sam ... ok 1091s test_Align_stockholm ... ok 1092s test_Align_tabular ... ok 1092s test_Application ... ok 1092s test_BioSQL_MySQLdb_online ... skipping. internet not available 1092s test_BioSQL_mysql_connector ... skipping. BioSQL test configuration file biosql.ini missing (see biosql.ini.sample) 1092s test_BioSQL_mysql_connector_online ... skipping. internet not available 1092s test_BioSQL_psycopg2_online ... skipping. internet not available 1098s test_BioSQL_sqlite3 ... ok 1098s test_BioSQL_sqlite3_online ... skipping. internet not available 1099s test_Blast_Record ... ok 1099s test_CAPS ... ok 1099s test_Chi2 ... ok 1100s test_ClustalOmega_tool ... ok 1101s test_Clustalw_tool ... skipping. Install clustalw or clustalw2 if you want to use it from Biopython. 1101s test_Cluster ... ok 1101s test_CodonTable ... ok 1101s test_ColorSpiral ... ok 1101s test_Compass ... ok 1102s test_Consensus ... ok 1105s test_Dialign_tool ... ok 1105s test_EMBL_unittest ... ok 1105s test_Emboss ... skipping. $EMBOSS_ROOT='/usr/lib/emboss' which does not exist! 1105s test_EmbossPrimer ... ok 1110s test_Entrez ... ok 1110s test_Entrez_online ... skipping. internet not available 1111s test_Entrez_parser ... ok 1111s test_Enzyme ... ok 1111s test_ExPASy ... skipping. internet not available 1111s test_Fasttree_tool ... ok 1111s test_File ... ok 1111s test_GenBank ... ok 1113s test_GenomeDiagram ... Warn: Can't find .pfb for face 'Helvetica' 1116s ok 1116s test_GraphicsChromosome ... ok 1117s test_GraphicsDistribution ... ok 1117s test_GraphicsGeneral ... ok 1118s test_HMMCasino ... ok 1118s test_HMMGeneral ... ok 1118s test_KEGG ... ok 1118s test_KEGG_online ... skipping. internet not available 1124s test_KGML_graphics ... ok 1124s test_KGML_graphics_online ... skipping. internet not available 1125s test_KGML_nographics ... ok 1125s test_KeyWList ... ok 1126s test_LogisticRegression ... ok 1127s test_MafIO_index ... ok 1129s test_Mafft_tool ... ok 1129s test_MarkovModel ... ok 1129s test_Medline ... ok 1129s test_Muscle_tool ... skipping. Install MUSCLE if you want to use the Bio.Align.Applications wrapper. 1131s test_NCBIXML ... ok 1134s test_NCBI_BLAST_tools ... ok 1134s test_NCBI_qblast ... ok 1134s test_NMR ... ok 1134s test_NaiveBayes ... ok 1135s test_Nexus ... ok 1135s test_PAML_baseml ... ok 1136s test_PAML_codeml ... ok 1136s test_PAML_yn00 ... ok 1136s test_PDBList ... skipping. internet not available 1139s test_PDB_CEAligner ... ok 1141s test_PDB_DSSP ... ok 1141s test_PDB_Dice ... ok 1142s test_PDB_Disordered ... ok 1142s test_PDB_Exposure ... ok 1142s test_PDB_FragmentMapper ... ok 1144s test_PDB_KDTree ... ok 1144s test_PDB_MMCIF2Dict ... ok 1144s test_PDB_MMCIFIO ... ok 1146s test_PDB_MMCIFParser ... ok 1146s test_PDB_NACCESS ... ok 1146s test_PDB_PDBIO ... ok 1146s test_PDB_PDBParser ... ok 1147s 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 1147s test_PDB_Polypeptide ... ok 1147s test_PDB_QCPSuperimposer ... ok 1151s test_PDB_SASA ... ok 1151s test_PDB_SMCRA ... ok 1151s test_PDB_Selection ... ok 1152s test_PDB_StructureAlignment ... ok 1152s test_PDB_Superimposer ... ok 1163s test_PDB_internal_coords ... ok 1163s test_PDB_parse_pdb_header ... ok 1164s test_PDB_vectors ... ok 1164s test_PQR ... ok 1164s test_Pathway ... ok 1165s test_Phd ... ok 1166s test_Phylo ... ok 1166s test_PhyloXML ... ok 1167s test_Phylo_CDAO ... ok 1167s test_Phylo_NeXML ... ok 1173s test_Phylo_matplotlib ... ok 1174s test_Phylo_networkx ... ok 1175s test_PopGen_GenePop_nodepend ... ok 1178s test_Prank_tool ... ok 1179s test_Probcons_tool ... ok 1180s test_ProtParam ... ok 1181s test_RCSBFormats ... ok 1182s test_Restriction ... ok 1183s test_SCOP_Astral ... ok 1184s test_SCOP_Cla ... ok 1185s test_SCOP_Des ... ok 1186s test_SCOP_Dom ... ok 1187s test_SCOP_Hie ... ok 1188s test_SCOP_Raf ... ok 1189s test_SCOP_Residues ... ok 1190s test_SCOP_Scop ... ok 1191s test_SCOP_online ... skipping. internet not available 1192s test_SVDSuperimposer ... ok 1193s test_SearchIO_blast_tab ... ok 1194s test_SearchIO_blast_tab_index ... ok 1195s test_SearchIO_blast_xml ... ok 1197s test_SearchIO_blast_xml_index ... ok 1198s test_SearchIO_blat_psl ... ok 1199s test_SearchIO_blat_psl_index ... ok 1200s test_SearchIO_exonerate ... ok 1201s test_SearchIO_exonerate_text_index ... ok 1202s test_SearchIO_exonerate_vulgar_index ... ok 1203s test_SearchIO_fasta_m10 ... ok 1204s test_SearchIO_fasta_m10_index ... ok 1205s test_SearchIO_hhsuite2_text ... ok 1206s test_SearchIO_hmmer2_text ... ok 1207s test_SearchIO_hmmer2_text_index ... ok 1208s test_SearchIO_hmmer3_domtab ... ok 1209s test_SearchIO_hmmer3_domtab_index ... ok 1210s test_SearchIO_hmmer3_tab ... ok 1211s test_SearchIO_hmmer3_tab_index ... ok 1212s test_SearchIO_hmmer3_text ... ok 1213s test_SearchIO_hmmer3_text_index ... ok 1214s test_SearchIO_interproscan_xml ... ok 1215s test_SearchIO_model ... ok 1217s test_SearchIO_write ... ok 1218s 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. 1218s warnings.warn( 1218s ok 1237s test_SeqIO ... ok 1239s test_SeqIO_AbiIO ... ok 1240s test_SeqIO_FastaIO ... ok 1240s test_SeqIO_Gck ... ok 1241s test_SeqIO_Insdc ... ok 1242s test_SeqIO_NibIO ... ok 1245s test_SeqIO_PdbIO ... ok 1247s test_SeqIO_QualityIO ... ok 1248s test_SeqIO_SeqXML ... ok 1249s test_SeqIO_SnapGene ... ok 1251s test_SeqIO_TwoBitIO ... ok 1252s test_SeqIO_Xdna ... ok 1253s 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 1253s warnings.warn( 1253s ok 1274s test_SeqIO_index ... ok 1275s test_SeqIO_online ... skipping. internet not available 1276s test_SeqIO_write ... ok 1277s test_SeqRecord ... ok 1278s test_SeqUtils ... ok 1280s test_Seq_objs ... ok 1281s test_SffIO ... ok 1282s test_SwissProt ... ok 1285s test_TCoffee_tool ... ok 1286s test_TogoWS ... skipping. internet not available 1288s test_TreeConstruction ... ok 1289s test_UniGene ... ok 1290s test_UniProt_GOA ... ok 1291s test_Uniprot ... ok 1292s test_align ... ok 1293s test_align_substitution_matrices ... ok 1297s test_bgzf ... ok 1298s test_cellosaurus ... ok 1305s test_codonalign ... ok 1306s test_geo ... ok 1307s test_kNN ... ok 1308s test_motifs ... ok 1309s test_motifs_online ... skipping. internet not available 1310s 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. 1310s warnings.warn( 1310s ok 1311s test_pairwise2_no_C ... ok 1312s test_pairwise_aligner ... ok 1313s test_pairwise_alignment_map ... ok 1323s test_phenotype ... ok 1324s test_phenotype_fit ... ok 1325s 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. 1326s test_prodoc ... ok 1327s test_prosite ... ok 1328s test_raxml_tool ... skipping. Install RAxML (binary raxmlHPC) if you want to test the Bio.Phylo.Applications wrapper. 1329s test_samtools_tool ... skipping. Install samtools and correctly set the file path to the program if you want to use it from Biopython 1330s test_seq ... ok 1331s test_translate ... ok 1332s ---------------------------------------------------------------------- 1332s Ran 211 tests in 257.079 seconds 1332s 1332s Skipping any tests requiring internet access 1332s Python version: 3.12.7 (main, Oct 3 2024, 15:15:22) [GCC 14.2.0] 1332s Operating system: posix linux 1335s autopkgtest [10:33:56]: test full_suite: -----------------------] 1339s autopkgtest [10:34:00]: test full_suite: - - - - - - - - - - results - - - - - - - - - - 1339s full_suite PASS 1344s autopkgtest [10:34:05]: @@@@@@@@@@@@@@@@@@@@ summary 1344s dependencies PASS 1344s full_suite PASS